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
A1 F28 I1 R1	163	52.9	1786516	99.3%	1774010	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,657,197	G→A	A580V (GCC→GTC)	hscA ←	iron‑sulfur cluster biosynthesis chaperone HscA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,657,197	0	G	A	95.5%	137.4 / ‑1.7	44	A580V (GCC→GTC)	hscA	iron‑sulfur cluster biosynthesis chaperone HscA
Reads supporting (aligned to +/- strand): ref base G (1/1); new base A (19/23); total (20/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.94e-01

GGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGAC  >  NC_000913/2657061‑2657311

ggCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGt                                                                                                                 >  1:436527/1‑140 (MQ=255)

 gCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTc                                                                                                                >  2:47380/1‑140 (MQ=255)

   aaaaTAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCaa                                                                                                              <  1:525807/140‑1 (MQ=255)

   aaaaTAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCaa                                                                                                              >  2:352378/1‑140 (MQ=255)

         aCAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAAcatcat                                                                                                        <  1:506416/140‑1 (MQ=255)

         aCAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAAcatcat                                                                                                        <  2:299005/140‑1 (MQ=255)

           aaTCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCg                                                                                                      <  2:266009/140‑1 (MQ=255)

                ttGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTg                                                                                                 <  2:599549/140‑1 (MQ=255)

                 tGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTgc                                                                                                >  1:439875/1‑140 (MQ=255)

                  ggCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTgcg                                                                                               <  2:511875/140‑1 (MQ=255)

                     atatTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCa                                                                                            <  2:588294/140‑1 (MQ=255)

                     atatTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCa                                                                                            <  1:572207/140‑1 (MQ=255)

                       atTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACt                                                                                          >  2:443372/1‑140 (MQ=255)

                       atTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACt                                                                                          <  1:47380/140‑1 (MQ=255)

                           aaCCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTgcg                                                                                               >  1:33098/1‑131 (MQ=255)

                           aaCCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTgcg                                                                                               <  2:33098/131‑1 (MQ=255)

                             ccTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTgcg                                                                                               >  2:256930/1‑129 (MQ=255)

                             ccTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTgcg                                                                                               <  1:256930/129‑1 (MQ=255)

                                cGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAgg                                                                                 >  2:343662/1‑140 (MQ=255)

                                cGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAgg                                                                                 >  2:338764/1‑140 (MQ=255)

                                 gTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGt                                                                                >  1:439979/1‑140 (MQ=255)

                                 gTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGt                                                                                >  1:691921/1‑140 (MQ=255)

                                  tCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACt                                                                                          >  1:370615/1‑129 (MQ=255)

                                  tCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACt                                                                                          <  2:370615/129‑1 (MQ=255)

                                  tCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTg                                                                               >  2:388034/1‑140 (MQ=255)

                                       ggAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCgg                                                                          <  1:352378/140‑1 (MQ=255)

                                         aaTGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGgca                                                                        <  1:343662/140‑1 (MQ=255)

                                         aaTGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGgca                                                                        >  1:747141/1‑140 (MQ=255)

                                           tGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGgcagc                                                                      >  2:298621/1‑140 (MQ=255)

                                             gCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCAt                                                                    <  2:225494/140‑1 (MQ=255)

                                             gCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCAt                                                                    <  1:388034/140‑1 (MQ=255)

                                                  tCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCa                                                               >  2:538743/1‑140 (MQ=255)

                                                        cACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGAcc                                                         >  1:796851/1‑140 (MQ=255)

                                                                  cGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTg                                               <  1:833287/140‑1 (MQ=255)

                                                                  cGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTg                                               <  2:556989/140‑1 (MQ=255)

                                                                                   gagcggcgaAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTgcg                                             <  2:78736/125‑1 (MQ=255)

                                                                                   gagcggcgaAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTgcg                                             >  1:78736/1‑125 (MQ=255)

                                                                                    agcggcgaAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCgg                             <  2:500593/140‑1 (MQ=255)

                                                                                    agcggcgaAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCgg                             <  1:443372/140‑1 (MQ=255)

                                                                                              tCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCagcagc                   <  2:691921/140‑1 (MQ=255)

                                                                                                        gtttgtCTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCg         >  2:813326/1‑140 (MQ=255)

                                                                                                              cTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGa   <  2:439875/140‑1 (MQ=255)

                                                                                                              cTACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGa   <  2:436527/140‑1 (MQ=255)

                                                                                                               tACGTTTTTAATCGCTTGTTCGATGACGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGAc  >  1:649940/1‑140 (MQ=255)

GGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGAC  >  NC_000913/2657061‑2657311

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