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
A17 F25 I0 R1	13	19.6	632057	98.4%	621944	146.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,787,133	A→G	21.0%	D347G (GAC→GGC)	gabT →	4‑aminobutyrate aminotransferase, PLP‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,787,133	0	A	G	21.0%	33.0 / 2.6	19	D347G (GAC→GGC)	gabT	4‑aminobutyrate aminotransferase, PLP‑dependent
Reads supporting (aligned to +/- strand): ref base A (10/5); new base G (2/2); total (12/7)
Fisher's exact test for biased strand distribution p-value = 6.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01

GTAACCCGATTGCCTGCGTGGCTGCGCTGGAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCACAACAAGCCGGACGCCAAACTCACCGCCGAGATCGTGGCTCGCGCCCGCGATAAAGGCCTGATTCTTCTCTCCTGCGGCCCGTATTACA  >  CP009273/2786992‑2787276

gTAACCCGATTGCCCGCGTGGCTGCGCTGGAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTAcgc                                                                                                                                          <  1:168932/149‑1 (MQ=255)

        aTTGCCTGCGTGGCTGCGCTGGAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACTGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCgg                                                                                                                                        <  2:255873/143‑1 (MQ=255)

          tGCCTGCGTGGCTGCGCTGGAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGc                                                                                                                                      >  2:101109/1‑143 (MQ=255)

                          cTGGAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAATGGATAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTgg                                                                                                                >  1:145578/1‑148 (MQ=255)

                             gAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGGCGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCt                                                                                                             >  1:121267/1‑149 (MQ=255)

                             gAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAACTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGGCGTATGCGGGCTGGGGGCGATGATCGCCATTGAGCt                                                                                                             >  1:222730/1‑149 (MQ=255)

                              aaGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTg                                                                                                            >  1:46481/1‑149 (MQ=255)

                                      aaGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGa                                                                                                    >  1:227599/1‑149 (MQ=255)

                                           gtTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGGACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGacg                                                                                                     >  2:187120/1‑141 (MQ=255)

                                                aGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATcac                                                                                          >  1:290845/1‑149 (MQ=255)

                                                  cAGGAAACGCTGCTGCAACAAGCCAACGTTCTGGGGCAGATGTTGGTCTTCGGAGGGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGATGGCGATCacaa                                                                                        <  1:76020/149‑1 (MQ=255)

                                                     gAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCAcaacaa                                                                                     >  1:66982/1‑149 (MQ=255)

                                                         aTCTGCTGCAAAAAGCCAACGATCGGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCACAACAAGCCg                                                                                 <  1:97285/149‑1 (MQ=255)

                                                          tCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCACAACAAGCCgg                                                                                <  1:311642/149‑1 (MQ=255)

                                                                   aaaaGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCACAACAAGCCGGACg                                                                             >  2:220297/1‑143 (MQ=255)

                                                                                   gggCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCGCAACAAGCCGGACGCCAAACTCACCGCCGAGATCGt                                                       >  1:288522/1‑149 (MQ=255)

                                                                                                                     ccGAAAAACAGCCGGAGATCGGCGGCGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCAATCACAACAAGCCGGACGCCAAACTCACCGCCGAGATCGTGGCTCGCGCCCGCGATAAAGGCCTGAtt                           <  2:197730/143‑1 (MQ=255)

                                                                                                                     ccGAAAAACACCCGGAGATCGGCGGCGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCACAACAAGCCGGACGCCAAACTCACCGCCGAGATCGTGGCTCGCGCCCGCGATAAAGGCCTGAtt                           <  2:106702/143‑1 (MQ=255)

                                                                                                                                        cGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCCCAACAAGCCGGACGCCAAACTCACCGCCGAGATCGTGGCTCGCGCCCGCGATAAAGGCCTGATTCTTCTCTCCTGCGGCCCGTATTACa  >  1:294423/1‑149 (MQ=255)

GTAACCCGATTGCCTGCGTGGCTGCGCTGGAAGTGTTGAAGGTGTTTGAGCAGGAAAATCTGCTGCAAAAAGCCAACGATCTGGGGCAGAAGTTGAAAGACGGATTGCTGGCGATAGCCGAAAAACACCCGGAGATCGGCGACGTACGCGGGCTGGGGGCGATGATCGCCATTGAGCTGTTTGAAGACGGCGATCACAACAAGCCGGACGCCAAACTCACCGCCGAGATCGTGGCTCGCGCCCGCGATAAAGGCCTGATTCTTCTCTCCTGCGGCCCGTATTACA  >  CP009273/2786992‑2787276

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A