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
A8 F28 I1 R1	182	57.1	1926220	99.1%	1908884	138.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,551,116	+G	coding (1358/2394 nt)	malP ←	maltodextrin phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,551,112	1	.	G	97.2%	121.2 / ‑3.1	36	coding (1362/2394 nt)	malP	maltodextrin phosphorylase
Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (22/13); total (22/14)
Fisher's exact test for biased strand distribution p-value = 3.89e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01

GCTGACGGAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGT‑GGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGCCAACCACACACA  >  NC_000913/3550979‑3551245

gCTGACGGAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGT‑gggggt                                                                                                                                 <  1:797770/140‑3 (MQ=255)

 cTGACGGAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGt                                                                                                                                        >  2:162897/1‑133 (MQ=255)

 cTGACGGAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGt                                                                                                                                        <  1:162897/133‑1 (MQ=255)

 cTGACGGAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGT‑GGGGTaa                                                                                                                                <  2:424209/140‑1 (MQ=255)

      ggAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATAcc                                                                                                                            >  2:299477/1‑140 (MQ=255)

             cGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTg                                                                                                                     <  2:499403/140‑1 (MQ=255)

                   atcaGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCTCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTa                                                                                                               <  2:888387/140‑1 (MQ=255)

                            tttttCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTg                                                                                                      >  2:750887/1‑140 (MQ=255)

                                                   cGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTc                                                                               >  2:339316/1‑140 (MQ=255)

                                                           ttAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACa                                                                       >  2:545705/1‑140 (MQ=255)

                                                               cccACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATc                                                                   >  1:328376/1‑140 (MQ=255)

                                                                  aCTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCttt                                                                <  1:54319/140‑1 (MQ=255)

                                                                   ctctTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTc                                                               <  1:545705/140‑1 (MQ=255)

                                                                   ctctTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTc                                                               >  2:648396/1‑140 (MQ=255)

                                                                     ctTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTcac                                                             <  1:648396/140‑1 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTcacca                                                           >  2:887414/1‑133 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTcacca                                                           <  1:887414/133‑1 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTc                                                               >  1:892856/1‑129 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTc                                                               <  2:892856/129‑1 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATc                                                    >  1:212696/1‑140 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATc                                                    >  1:149622/1‑140 (MQ=255)

                                                                              gTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATc                                                    >  1:128214/1‑140 (MQ=255)

                                                                                 aTTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGa                                                 >  1:379637/1‑140 (MQ=255)

                                                                                           cAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGATGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAgcg                                         <  2:899808/138‑1 (MQ=255)

                                                                                           cAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAgcg                                         >  1:899808/1‑138 (MQ=255)

                                                                                           cAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGcgcc                                       >  2:101044/1‑140 (MQ=255)

                                                                                           cAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGcgcc                                       >  2:721260/1‑140 (MQ=255)

                                                                                           cAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGcgcc                                       <  1:299477/140‑1 (MQ=255)

                                                                                              agCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACAACCAGATTCGAGTGCAg                                           <  2:432844/133‑1 (MQ=255)

                                                                                              agCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGGGATATTCCGGGAACAGATCTTTCACCACCAGATTCGAGTGCAg                                           >  1:432844/1‑133 (MQ=255)

                                                                                                ccgccAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAac                                  >  1:866046/1‑140 (MQ=255)

                                                                                                ccgccAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAac                                  >  1:233257/1‑140 (MQ=255)

                                                                                                 cgccAGTGCCGGGTTGCACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAaca                                 <  1:101044/140‑1 (MQ=255)

                                                                                                                 cACTGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAAc                 >  1:207749/1‑140 (MQ=255)

                                                                                                                    tGTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGc              <  2:379637/140‑1 (MQ=255)

                                                                                                                     gTTTGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGcc             <  2:207749/140‑1 (MQ=255)

                                                                                                                       ttGATCCAGCGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGCCaa           <  1:750887/140‑1 (MQ=255)

                                                                                                                              aGCGACGTGGGGGTAATACCGTTGGAGACGTTATGGGATTTGTTCGGCCATAGCAGGTGATATTCCGGGAACAGATCTTTCACTACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCACCAACcacaca    >  2:153080/1‑140 (MQ=255)

                                                                                                                                cGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGCCAACcacacaca  >  2:27335/1‑140 (MQ=255)

                                                                                                                                cGACGTGGGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGCCAACcacacaca  >  1:14988/1‑140 (MQ=255)

GCTGACGGAATTTCGCATCATCAGCGAATTTTTCCAGATTGATCAGCTGATCGAGATCGTTAGCCCACTCTTTTTGCAGTGATTTATCCAACAGAGCCGCCAGTGCCGGGTTGCACTGTTTGATCCAGCGACGT‑GGGGTAATACCGTTGGTGACGTTATGGAATTTGTTCGGCCATAGCTGGTGATATTCCGGGAACAGATCTTTCACCACCAGATCCGAGTGCAGCGCCGCAACACCGTTCACCGCGAAACCGCCAACCACACACA  >  NC_000913/3550979‑3551245

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