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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,028,132	A→G	T63A (ACG→GCG)	yccU →	putative CoA‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,028,132	0	A	G	96.8%	101.0 / ‑4.2	31	T63A (ACG→GCG)	yccU	putative CoA‑binding protein
Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (15/15); total (15/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

TCACACCATTGCGCTGGTGGGGGCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCACGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTGGGGGTGATTAATGAGCAAGCGGC  >  NC_000913/1027984‑1028274

tCACACCATTGCGCTGGTGGGGGCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGcgcg                                                                                                                                              >  2:470575/1‑151 (MQ=255)

  acacCATTGCGCTGGTGGGGGCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCt                                                                                                                                            >  2:549329/1‑151 (MQ=255)

          gcgcTGGTGGGGGCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACg                                                                                                                                    <  2:571471/151‑1 (MQ=255)

              tggtggGGGCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTcc                                                                                                                                >  1:128406/1‑151 (MQ=255)

                  gggggCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGaa                                                                                                                            <  2:241104/151‑1 (MQ=255)

                              cAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATg                                                                                                                <  2:91398/151‑1 (MQ=255)

                                      aTCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGt                                                                                                        >  2:42425/1‑151 (MQ=255)

                                         gTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGtttt                                                                                                     <  2:136270/151‑1 (MQ=255)

                                               gCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTaa                                                                                               <  2:632998/151‑1 (MQ=255)

                                                      cgTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGa                                                                                         >  2:595819/1‑150 (MQ=255)

                                                       gTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAg                                                                                       <  2:536260/151‑1 (MQ=255)

                                                          atgaAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAgcgg                                                                                    <  2:16932/151‑1 (MQ=255)

                                                            gaAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAgcggcg                                                                                  <  2:50788/151‑1 (MQ=255)

                                                                    tACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCggcgtggggcgt                                                                          >  1:629777/1‑151 (MQ=255)

                                                                     aCTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCggcgtggggcgt                                                                          <  2:459827/150‑1 (MQ=255)

                                                                        cGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCACGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCggcgtggggcgtgg                                                                        <  1:334105/149‑1 (MQ=255)

                                                                          aCCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGcaca                                                                    <  1:366443/151‑1 (MQ=255)

                                                                             aGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGa                                                                 <  2:442459/151‑1 (MQ=255)

                                                                                 gTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCt                                                             <  2:100230/151‑1 (MQ=255)

                                                                                  tATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCt                                                             >  1:123302/1‑150 (MQ=255)

                                                                                       cGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGcc                                                       >  1:329348/1‑151 (MQ=255)

                                                                                                   ttCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGaa                                            >  2:645842/1‑150 (MQ=255)

                                                                                                    tCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGaaa                                           <  1:614757/150‑1 (MQ=255)

                                                                                                         aaaaGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAActctc                                     >  1:639463/1‑151 (MQ=255)

                                                                                                                   ggCAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAAc                           <  2:122981/151‑1 (MQ=255)

                                                                                                                     cAAAACGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTg                         >  2:661888/1‑151 (MQ=255)

                                                                                                                       aaaCGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTggg                       >  2:527259/1‑151 (MQ=255)

                                                                                                                       aaaCGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTggg                       >  1:469288/1‑151 (MQ=255)

                                                                                                                          cGCTGCTGGGCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTGGGGGt                    <  2:350972/151‑1 (MQ=255)

                                                                                                                           gctgctGGGCCAGAAGGGGTATGGTGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTGGGGGTg                   >  2:449575/1‑151 (MQ=255)

                                                                                                                                  ggCCAGAAGGGGTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTGGGGGTGATTAATg            >  2:648936/1‑151 (MQ=255)

                                                                                                                                             gTATGGCGCGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTGGGGGTGATTAATGAGCAAGCGGc  >  2:83314/1‑150 (MQ=255)

TCACACCATTGCGCTGGTGGGGGCAAGCGACAAACCCGATCGTCCCAGCTATCGCGTGATGAAATATCTACTCGACCAGGGGTATCACGTCATTCCGGTTTCGCCAAAAGTTGCCGGCAAAACGCTGCTGGGCCAGAAGGGGTATGGCACGCTGGCAGACGTTCCGGAAAAAGTCGATATGGTCGATGTTTTCCGTAATTCAGAAGCGGCGTGGGGCGTGGCACAGGAAGCTATTGCCATTGGCGCGAAAACTCTCTGGATGCAACTGGGGGTGATTAATGAGCAAGCGGC  >  NC_000913/1027984‑1028274

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A