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 F67 I1 R1	27	23.6	499472	97.1%	484987	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	134,393	G→A	L12L (TTG→TTA)	sbnA →	possible pyridoxal‑phosphate dependent enzyme

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	134,393	0	G	A	96.7%	102.7 / NA	30	L12L (TTG→TTA)	sbnA	possible pyridoxal‑phosphate dependent enzyme
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (10/19); minor base C (1/0); total (11/19)
Fisher's exact test for biased strand distribution p-value = 3.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AATGCATAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTGTTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGAAAGATCGACCTGCCAAGTAC  >  CP000730/134257‑134516

aaTGCATAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAg                                                                                                                         <  1:307005/141‑1 (MQ=255)

aaTGCATAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAg                                                                                                                         <  1:379630/141‑1 (MQ=255)

  tGCATAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGAt                                                                                                                       <  1:346155/141‑1 (MQ=255)

    cATAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTc                                                                                                                     <  1:403465/141‑1 (MQ=255)

      tAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTAATTATTAGATTCTg                                                                                                                   >  1:305926/1‑141 (MQ=255)

                     tAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTa                                                                                                    <  1:126412/141‑1 (MQ=255)

                               aTAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACt                                                                                          <  1:127869/141‑1 (MQ=255)

                                    gagaATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTtcatc                                                                                     <  1:228557/141‑1 (MQ=255)

                                    gagaATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTtcatc                                                                                     <  1:431808/141‑1 (MQ=255)

                                     agaATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTtcatca                                                                                    <  1:410440/141‑1 (MQ=255)

                                     agaATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTtcatca                                                                                    <  1:380746/141‑1 (MQ=255)

                                       aaTCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAAc                                                                                  <  1:96343/141‑1 (MQ=255)

                                                  aTTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGaaa                                                                       >  1:350984/1‑141 (MQ=255)

                                                     aGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACAt                                                                    <  1:346424/141‑1 (MQ=255)

                                                        tAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATGGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGaa                                                                 >  1:253380/1‑141 (MQ=255)

                                                                   attatAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGAGTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCaaa                                                      >  1:206765/1‑141 (MQ=255)

                                                                          acttttAAATTTGAGGAGGAAGCGCTGTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTagag                                               <  1:172287/139‑1 (MQ=255)

                                                                               tAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTCTTAGATTCTGTAGGGCAAACACCTATGGTGTTACGTCATCAACTATTTCCGAAACATGAAGGGGTTGCAAAGTTAGAGTatat                                          >  1:385519/1‑141 (MQ=255)

                                                                                aaaTTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATg                                         >  1:374317/1‑141 (MQ=255)

                                                                                aaaTTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATg                                         <  1:389190/141‑1 (MQ=255)

                                                                                aaaTTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCACCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATg                                         <  1:140154/141‑1 (MQ=255)

                                                                                  aTTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCGAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGaa                                       >  1:315420/1‑141 (MQ=255)

                                                                                               gcgcTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGgcagc                          >  1:157018/1‑141 (MQ=255)

                                                                                               gcgcTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACAACTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGgcagc                          >  1:439828/1‑141 (MQ=255)

                                                                                                  cTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATg                       <  1:304005/141‑1 (MQ=255)

                                                                                                       gattgaAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGAAAGa                  <  1:256246/141‑1 (MQ=255)

                                                                                                         ttgaAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAGCTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGGAAGATc                >  1:84566/1‑141 (MQ=255)

                                                                                                         ttgaAAAAAGTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGAAAGATc                >  1:171650/1‑141 (MQ=255)

                                                                                                                  gTCAAGCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGAAAGATCGACCTGCCa       <  1:480715/141‑1 (MQ=255)

                                                                                                                       gCATGTCACGATTCATTATTAGATTCTGTAGGGCAAACACCTATGGTTCAACTAAAATACCCATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGAAAGATCGACCTGCCAAGTAc  <  1:488726/141‑1 (MQ=255)

AATGCATAAAAAATATAATCCTAATTACTTGATAGTGAGAATCATTATCAATTAGGTAACACACAATATTATAGAATTTTAAATTTGAGGAGGAAGCGCTTTTGATTGAAAAAAGTCAAGCATGTCACGATTCATTGTTAGATTCTGTAGGGCAAACACCTATGGTTCAACTTCATCAACTATTTCCGAAACATGAAGTGTTTGCAAAGTTAGAGTATATGAATCCTGGAGGCAGCATGAAAGATCGACCTGCCAAGTAC  >  CP000730/134257‑134516

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A