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
A2 F28 I1 R1	155	60.3	2039550	99.3%	2025273	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,794,400	G→A	A50T (GCC→ACC)	gabP →	4‑aminobutyrate:H(+) symporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,794,400	0	G	A	97.7%	140.3 / NA	44	A50T (GCC→ACC)	gabP	4‑aminobutyrate:H(+) symporter
Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (18/25); total (19/25)
Fisher's exact test for biased strand distribution p-value = 4.32e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCACATGAGTTAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGGCCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTGGGCGGGCTATACCATCG  >  NC_000913/2794270‑2794535

aCCACATGAGTTAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGt                                                                                                                                  >  2:961632/1‑140 (MQ=255)

    caTGAGTTAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGc                                                                                                                              <  2:834234/140‑1 (MQ=255)

         gTTAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGc                                                                                                                         >  2:326542/1‑140 (MQ=255)

          ttAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCt                                                                                                                        <  1:396117/140‑1 (MQ=255)

          ttAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCt                                                                                                                        <  2:639998/140‑1 (MQ=255)

              gcggcgGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACtg                                                                                                                    >  2:916409/1‑140 (MQ=255)

              gcggcgGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACtg                                                                                                                    <  1:497318/140‑1 (MQ=255)

              gcggcgGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACtg                                                                                                                    <  1:71626/140‑1 (MQ=255)

              gcggcgGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTAGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACtg                                                                                                                    <  1:1015428/140‑1 (MQ=255)

                  cggGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACtggtgg                                                                                                                >  2:847483/1‑140 (MQ=255)

                  cggGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACtggtgg                                                                                                                >  2:448554/1‑140 (MQ=255)

                  cggGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGGTATACTTACCTATCTGTTTGCCGGGCTTGtggtgg                                                                                                                >  1:260664/1‑140 (MQ=255)

                    ggCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGtt                                                                                                              >  2:681390/1‑140 (MQ=255)

                        gAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGa                                                                                                          <  2:995680/140‑1 (MQ=255)

                        gAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGa                                                                                                          <  1:681390/140‑1 (MQ=255)

                                    cGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGt                                                                                              >  1:979502/1‑140 (MQ=255)

                                            tgttgtCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGaa                                                                                     <  1:54535/140‑1 (MQ=255)

                                                 tCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGc                                                                                >  1:45421/1‑140 (MQ=255)

                                                 tCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGc                                                                                >  2:746688/1‑140 (MQ=255)

                                                 tCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGc                                                                                >  2:494141/1‑140 (MQ=255)

                                                    aTTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑gg                                                                             <  2:546107/139‑1 (MQ=255)

                                                    aTTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑gg                                                                             >  1:546107/1‑139 (MQ=255)

                                                      tGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTg                                                                          >  2:968513/1‑140 (MQ=255)

                                                      tGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTg                                                                          >  2:618820/1‑140 (MQ=255)

                                                        ccGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGcc                                                                        <  1:916409/140‑1 (MQ=255)

                                                        ccGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGcc                                                                        <  1:53485/140‑1 (MQ=255)

                                                         cGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCa                                                                       <  1:711331/140‑1 (MQ=255)

                                                           gtgtTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGGTGccccc                                                                     >  2:889109/1‑137 (MQ=255)

                                                             gtTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGcc                                                                   <  1:690177/140‑1 (MQ=255)

                                                             gtTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGGTGCCCCGcc                                                                   >  1:834032/1‑140 (MQ=255)

                                                                 tCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGGCCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGGTGTTGGCGGGAAAGGGC‑GGTGGCCaacccgca                                                                >  2:711331/1‑133 (MQ=255)

                                                                        aaGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGtt                                                        <  2:169943/140‑1 (MQ=255)

                                                                            cTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGtt                                                    <  1:961632/140‑1 (MQ=255)

                                                                               tttGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGGTGCCCCCCCCCATACCCGGTCGttttt                                                 >  1:601530/1‑139 (MQ=255)

                                                                                  gTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGT‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCAc                                              >  2:430199/1‑140 (MQ=255)

                                                                                  gTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCAc                                              <  1:494141/140‑1 (MQ=255)

                                                                                     ggTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGCGGGTTGCC‑CGCCCGGCAACCGCTCGtttttcccccc                                           >  2:150451/1‑133 (MQ=255)

                                                                                      gTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGT‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTAt                                          <  2:641677/140‑1 (MQ=255)

                                                                                       ttCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGT‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATg                                         <  1:430199/140‑1 (MQ=255)

                                                                                                     ccGCCGAAGCGGGCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCAtt                           <  2:260664/139‑1 (MQ=255)

                                                                                                               gggCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTggg                 <  2:45421/140‑1 (MQ=255)

                                                                                                               gggCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTggg                 <  1:150451/140‑1 (MQ=255)

                                                                                                                 gCCCGGCGGTATTACTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTgggcg               <  1:618820/140‑1 (MQ=255)

                                                                                                                              aCTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTGGGCGGGCTATACCATCg  <  1:847483/140‑1 (MQ=255)

                                                                                                                              aCTGACCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTGGGCGGGCTATACCATCg  <  1:448554/140‑1 (MQ=255)

ACCACATGAGTTAGGCGGCGGGCTGAAGTCACGCCACGTCACCATGTTGTCTATTGCCGGTGTTATCGGCGCAAGTCTGTTTGTCGGTTCCAGCGTCGCCATCGCCGAAGCGGGCCCGGCGGTATTACTGGCCTATCTGTTCGCCGGGCTACTGGTGGTTATGATTATGCGGATGTTGGC‑GGAAATGGC‑GGTTGCCACGCCCGATACCGGTTCGTTTTCCACCTATGCCGATAAAGCCATTGGTCGCTGGGCGGGCTATACCATCG  >  NC_000913/2794270‑2794535

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A