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
A7 F422 I51 R1	223	69.9	1534784	95.1%	1459579	214.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,477,084	A→C	N550H (AAT→CAT)	yjgL →	SopA‑central‑domain‑like hexapeptide repeat protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,477,084	0	A	C	97.0%	115.0 / ‑3.1	33	N550H (AAT→CAT)	yjgL	SopA‑central‑domain‑like hexapeptide repeat protein
Reads supporting (aligned to +/- strand): ref base A (1/0); new base C (18/14); total (19/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.11e-01

ATATTTTTATGAATGATTTCTTTATGAAAAATCCTGAGATGATTAATTGGTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGAATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCGGGATGGTTTGTATTTCCCGGCATCTTTATAGCGATAGCAA  >  NC_000913/4476893‑4477306

atatTTTTATGAATGATTTCTTTATGAAAAATCCTGAGATGATTAATTGGTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATc                                                                                                                                                                                       <  2:90302/233‑1 (MQ=255)

atatTTTTATGAATGATTTCTTTATGAAAAATCCTGAGATGATTAATTGGTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATc                                                                                                                                                                                       >  1:90302/1‑233 (MQ=255)

      ttATGAATGATTTCTTTATGAAAAATCCTGAGATGATTAATTGGTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCg                                                                                                                                                                              >  1:290569/1‑236 (MQ=255)

             tgaTTTCTTTATGAAAAATCCTGAGATGATTAATTGGTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTa                                                                                                                                                                       <  2:4306/236‑1 (MQ=255)

                                                ggTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTtaaat                                                                                                                                    <  1:757694/236‑1 (MQ=255)

                                                  tACTTCCATGAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTtaaataa                                                                                                                                  <  1:290200/236‑1 (MQ=255)

                                                   aCTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTa                                                                                                                                                               >  2:1855/1‑206 (MQ=255)

                                                   aCTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTa                                                                                                                                                               <  1:1855/206‑1 (MQ=255)

                                                               tACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCg                                                                                                                     >  2:324860/1‑236 (MQ=255)

                                                                 cTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCg                                                                                                                                                                              <  2:537040/177‑1 (MQ=255)

                                                                 cTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCg                                                                                                                                                                              >  1:537040/1‑177 (MQ=255)

                                                                            tGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGta                                                                                                        >  2:294058/1‑236 (MQ=255)

                                                                                 gTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCa                                                                                                   >  1:212118/1‑236 (MQ=255)

                                                                                   gAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTa                                                                                                                                                                  <  2:262445/171‑1 (MQ=255)

                                                                                   gAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTa                                                                                                                                                                  >  1:262445/1‑171 (MQ=255)

                                                                                           ttatttTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGTAAATTTACg                                                                                                          <  2:345635/219‑1 (MQ=255)

                                                                                           ttatttTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGTAAATTTACg                                                                                                          >  1:345635/1‑219 (MQ=255)

                                                                                                         tAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAAt                                                                           <  2:212118/236‑1 (MQ=255)

                                                                                                         tAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAAt                                                                           <  1:294058/236‑1 (MQ=255)

                                                                                                                 gATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAAt                                                                           >  1:355233/1‑228 (MQ=255)

                                                                                                                             aatgataaGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTa                                                                                                                                                                  <  2:173365/129‑1 (MQ=255)

                                                                                                                             aatgataaGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTa                                                                                                                                                                  >  1:173365/1‑129 (MQ=255)

                                                                                                                                         tCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAAACCTATCACTGCATAAAATAATGTGATGcc                                           >  1:413680/1‑236 (MQ=255)

                                                                                                                                          cTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCg                                          >  1:350381/1‑236 (MQ=255)

                                                                                                                                           taataaAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAg                                                                         <  1:331835/204‑1 (MQ=255)

                                                                                                                                           taataaAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAg                                                                         >  2:331835/1‑204 (MQ=255)

                                                                                                                                                       tttGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCGGGATGGTTTGt                               <  1:6758/234‑1 (MQ=255)

                                                                                                                                                                        aTAATGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCGGGATGGTTTGTATTTCCCTGAACCTTtata            >  2:64807/1‑236 (MQ=255)

                                                                                                                                                                            tGTTATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCGGGATGGTTTGTATTTCCCGGCATCTTTATAGCGa        >  2:532567/1‑236 (MQ=255)

                                                                                                                                                                              ttATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAAt                                                                           <  1:427947/167‑1 (MQ=255)

                                                                                                                                                                              ttATCAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAAt                                                                           >  2:427947/1‑167 (MQ=255)

                                                                                                                                                                                  cAAAGAAAAACTGCATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCGGGATGGTTTGTATTTCCCGGCATCTTTATAGCGATAGCaa  >  1:374052/1‑236 (MQ=255)

                                                                                                                                                                                  cAAAGAAAAACTGAATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTTTAACTGCTTAAATTAATGTGATTCCGGGATGGTTGGAATTTCCCGGCATCTTTTTAGCgcaagcaa  >  2:424370/1‑236 (MQ=255)

ATATTTTTATGAATGATTTCTTTATGAAAAATCCTGAGATGATTAATTGGTACTTCCCTCAGTTACTTAAGAGTTATGAGGGTGAAAAGATTTATTTTGATAATTTAAAATATGATTTAAATGATAATGATAAGGAATCTAATAAAGAAATTTTGAAGAATCAACCAGATAATGTTATCAAAGAAAAACTGAATAATGAATACAAACTTAGATTTAGAATGATGCAAACTATCTTGCAATCGAGAGTTAATGTATTACCATATATTAATGAACAGCGTTTAAATAAACTAAATCCACCGGAAAATTTACGTATAGCAATAGAACACTTTGGGTGGAAGAATAGACCTATCACTGCATAAAATAATGTGATGCCGGGATGGTTTGTATTTCCCGGCATCTTTATAGCGATAGCAA  >  NC_000913/4476893‑4477306

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A