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
A6 F1 I2 R1	67	27.9	1239648	95.3%	1181384	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,429,264	C→T	N110N (AAC→AAT)	fklB →	FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,429,264	0	C	T	88.2%	83.3 / 5.2	34	N110N (AAC→AAT)	fklB	FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)
Reads supporting (aligned to +/- strand): ref base C (3/1); new base T (16/14); total (19/15)
Fisher's exact test for biased strand distribution p-value = 6.13e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.22e-01

AGCGCGCCGATGCCGTTCGTCGTCAGCGTTTCCAGGCGATGGCTGCTGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAACCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGAACCCGCTGAATTCCCGGTTAATGGCGT  >  NC_000913/4429134‑4429395

aGCGCGCCGATGCCGTTCGTCGTCAGCGTTTCCAGGCGATGGCTGCTGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGa                                                                                                                             <  1:455185/139‑1 (MQ=255)

                                    cGATGGCTGCTGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCgtgt                                                                                         >  1:5076/1‑139 (MQ=255)

                                      aTGGCTGCTGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTc                                                                                       >  1:51600/1‑139 (MQ=255)

                                       tGGCTGCTGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCa                                                                                      >  1:327145/1‑139 (MQ=255)

                                         gctgctGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCAtt                                                                                    >  1:432691/1‑139 (MQ=255)

                                                            aCCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGa                                                                 >  2:93565/1‑139 (MQ=255)

                                                              cTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAACCAGGGTGAAGgcgc                                                                                                                       >  2:79696/1‑83 (MQ=255)

                                                              cTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAACCAGGGTGAAGgcgc                                                                                                                       <  1:79696/83‑1 (MQ=255)

                                                                 gaagaaAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            <  2:5076/139‑1 (MQ=255)

                                                                 gaagaaAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            <  2:432691/139‑1 (MQ=255)

                                                                 gaagaaAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            <  2:51600/139‑1 (MQ=255)

                                                                 gaagaaAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            <  1:536845/139‑1 (MQ=255)

                                                                 gaagaaAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            <  1:588297/139‑1 (MQ=255)

                                                                   agaaAACGCCAAAAAAGAAGGTGTGAATAGCTCCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCAcc                                                          <  2:486507/139‑1 (MQ=255)

                                                                       aaCGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAAtt                                                                                                                   <  2:374103/78‑1 (MQ=255)

                                                                       aaCGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAAtt                                                                                                                   >  1:374103/1‑78 (MQ=255)

                                                                       aaCGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            >  1:582829/1‑133 (MQ=255)

                                                                       aaCGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCa                                                            <  2:582829/133‑1 (MQ=255)

                                                                           ccAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGa                                                  <  2:365377/139‑1 (MQ=255)

                                                                                      ggTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTg                                       >  2:604876/1‑139 (MQ=255)

                                                                                                 cACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTcc                                           <  2:33255/124‑1 (MQ=255)

                                                                                                 cACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTcc                                           >  1:33255/1‑124 (MQ=255)

                                                                                                 cACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGaa                            >  1:51417/1‑139 (MQ=255)

                                                                                                 cACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGaa                            >  2:141701/1‑139 (MQ=255)

                                                                                                 cACCGAATCTGGCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGaa                            >  2:343766/1‑139 (MQ=255)

                                                                                                 cACCGAATCTGGCCTGCAATTCCGCGTGATCAACCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGaa                            >  1:123347/1‑139 (MQ=255)

                                                                                                           ggCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGAACCCGCTGAAt                  >  2:262935/1‑139 (MQ=255)

                                                                                                           ggCCTGCAATTCCGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGAACCCGCTGAAt                  >  2:506832/1‑139 (MQ=255)

                                                                                                           ggCCTGCAATTCCGCGTGATCAACCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGAACCCGCTGAAt                  >  2:348197/1‑139 (MQ=255)

                                                                                                                      ccGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCgt                                                                                           <  2:304270/55‑1 (MQ=255)

                                                                                                                      ccGCGTGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCgt                                                                                           >  1:304270/1‑55 (MQ=255)

                                                                                                                           tGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTa                                                                                   >  2:466999/1‑58 (MQ=255)

                                                                                                                           tGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTa                                                                                   <  1:466999/58‑1 (MQ=255)

                                                                                                                           tGATCAATCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGAACCCGCTGAATTCCCGGTTAATGGCGt  <  1:262935/139‑1 (MQ=255)

AGCGCGCCGATGCCGTTCGTCGTCAGCGTTTCCAGGCGATGGCTGCTGAAGGTGTGAAATACCTGGAAGAAAACGCCAAAAAAGAAGGTGTGAATAGCACCGAATCTGGCCTGCAATTCCGCGTGATCAACCAGGGTGAAGGCGCAATTCCGGCACGTACCGACCGCGTTCGTGTTCATTACACCGGTAAACTGATCGACGGCACCGTGTTTGACAGCTCCGTTGCTCGTGGTGAACCCGCTGAATTCCCGGTTAATGGCGT  >  NC_000913/4429134‑4429395

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