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 F68 I0 R1	301	54.1	2003606	96.0%	1923461	135.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	4,099,484	C→A	21.6%	T241T (ACC→ACA)	sbp →	sulfate transporter subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	4,099,484	0	C	A	21.6%	49.9 / 9.2	27	T241T (ACC→ACA)	sbp	sulfate transporter subunit
Reads supporting (aligned to +/- strand): ref base C (13/8); new base A (3/3); total (16/11)
Fisher's exact test for biased strand distribution p-value = 6.62e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTGTCGAGCGCGGAATTGGCGATGTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGAAAAACTACTACCGTCCGCGCGACG  >  CP009273/4099356‑4099611

tttGTCGAGCGCGGAATTGGCGATGTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCggtggt                                                                                                                      <  1:27208/140‑1 (MQ=255)

   gTCGAGCGCGGAATTGGCGATGTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGa                                                                                                                   >  1:106737/1‑140 (MQ=255)

             gAATTGGCGATGTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCACCCGTGTCGGTGGTCGATAAAGTGGTc                                                                                                         <  1:426998/140‑1 (MQ=255)

                     gATGTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGaaaaa                                                                                                 <  1:414448/140‑1 (MQ=255)

                        gTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAgg                                                                                              >  1:144987/1‑140 (MQ=255)

                        gTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAgg                                                                                              >  2:502478/1‑140 (MQ=255)

                        gTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAgg                                                                                              >  2:395983/1‑140 (MQ=255)

                        gTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGAGAATGAACTGGGGAAAGATAAATACGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGacaaaatg                                                                                              >  2:839695/1‑138 (MQ=255)

                                  ccTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAagag                                                                                    >  1:151094/1‑140 (MQ=255)

                                             gAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGc                                                                         <  1:502478/140‑1 (MQ=255)

                                                 ctctGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGAGAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGACGCCTAc                                                                     >  2:258685/1‑140 (MQ=255)

                                                 ctctGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACAGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTAc                                                                     >  1:732828/1‑140 (MQ=255)

                                                 ctctGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACAGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTAc                                                                     >  1:732823/1‑140 (MQ=255)

                                                 ctctGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACAGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTAc                                                                     >  1:339225/1‑140 (MQ=255)

                                                                                         aaTCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCcg                             >  1:736175/1‑140 (MQ=255)

                                                                                         aaTCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCcg                             >  1:604267/1‑140 (MQ=255)

                                                                                         aaTCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCcg                             >  1:504370/1‑140 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:901308/140‑1 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:941178/140‑1 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:941360/140‑1 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:95004/140‑1 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACAGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:339225/140‑1 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACAGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:732823/140‑1 (MQ=255)

                                                                                            cGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACAGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGa                          <  2:732828/140‑1 (MQ=255)

                                                                                                                tCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGACATTGCCGCGAAAAACTACTACCGTCcgcgc      >  2:548216/1‑140 (MQ=255)

                                                                                                                    cGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGAAAAACTACTACCGTCCGCGCGACg  >  1:711777/1‑140 (MQ=255)

                                                                                                                    cGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGAAAAACTACTACCGTCCGCGCGACg  >  1:526860/1‑140 (MQ=255)

TTTGTCGAGCGCGGAATTGGCGATGTACTGATTGCCTGGGAAAACGAAGCTCTGCTGGCAGCGAATGAACTGGGGAAAGATAAATTCGAAATCGTCACGCCGAGTGAGTCTATCCTCGCAGAGCCAACCGTGTCGGTGGTCGATAAAGTGGTCGAGAAAAAAGGTACTAAAGAGGTGGCGGAAGCCTACCTGAAATATCTCTACTCGCCAGAAGGTCAGGAAATTGCCGCGAAAAACTACTACCGTCCGCGCGACG  >  CP009273/4099356‑4099611

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 11 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A