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 F169 I1 R1	59	38.6	831760	90.8%	755238	148.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,272,733	C→T	intergenic (‑321/‑342)	glmS ← / → mtlF	glutamine‑‑fructose‑6‑phosphate transaminase (isomerizing)/PTS family fructose/mannitol (fru) porter component IIBC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,272,733	0	C	T	100.0%	80.7 / NA	25	intergenic (‑321/‑342)	glmS/mtlF	glutamine‑‑fructose‑6‑phosphate transaminase (isomerizing)/PTS family fructose/mannitol (fru) porter component IIBC
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (12/13); total (12/13)

TCTTATTAACTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGCACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGCCGAACTTTCCCCCTTTCCATTAATCATTATTGTACAACGGTGTTGTT  >  CP000730/2272605‑2272861

tCTTATTAACTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAGTACATATATTGTACTCTATAAAGGCCACTCa                                                                                                               >  2:4739/1‑148 (MQ=255)

tCTTATTAACTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCa                                                                                                               <  1:336023/148‑1 (MQ=255)

tCTTATTAACTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCa                                                                                                               <  1:178669/148‑1 (MQ=255)

tCTTATTAACTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCa                                                                                                               >  2:362365/1‑148 (MQ=255)

tCTTATTAACTTTCTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCa                                                                                                               <  1:90782/148‑1 (MQ=255)

         cTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAAc                                                                                                      >  1:88455/1‑148 (MQ=255)

              tCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTa                                                                                                 >  2:195301/1‑148 (MQ=255)

                    aaGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTc                                                                                           <  1:77869/148‑1 (MQ=255)

                       tCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTcaaa                                                                                        <  1:129707/148‑1 (MQ=255)

                          cccTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTcaaatac                                                                                     >  1:292592/1‑148 (MQ=255)

                                  ttttACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAAtattt                                                                             <  1:228609/148‑1 (MQ=255)

                                  ttttACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAAtattt                                                                             <  2:259242/148‑1 (MQ=255)

                                  ttgtACTTAATAAGCTAGCGAATGGGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTCTCCTCCTCGTCTACAAATTCATATTTTGTACTCTATAAAGGCCACTCCTATATTAACCTTTAATCTTCAAATACAAAtattt                                                                             <  2:386187/145‑1 (MQ=255)

                                   tttACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAAtattta                                                                            >  1:43820/1‑148 (MQ=255)

                                             aaGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAgg                                                                  <  1:263879/148‑1 (MQ=255)

                                               gCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGgcg                                                                >  2:64785/1‑148 (MQ=255)

                                                       aTGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACt                                                        <  1:10366/148‑1 (MQ=255)

                                                       aTGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACt                                                        >  1:294393/1‑148 (MQ=255)

                                                           gCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTAc                                                    <  2:52940/148‑1 (MQ=255)

                                                              acaTCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGc                                                 >  2:340426/1‑148 (MQ=255)

                                                              acaTCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGc                                                 >  1:163891/1‑148 (MQ=255)

                                                                              ccgccgATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGCCGAACTTTCCCCCttt                                 <  2:65887/148‑1 (MQ=255)

                                                                                        aTTCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGCCGAACTTTCCCCCTTTCCATTAATCa                       <  1:362365/148‑1 (MQ=255)

                                                                                          tCGATCACTATCCTCCTCGTCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGCCGAACTTTCCCCCTTTCCATCAATCatt                     >  1:190154/1‑148 (MQ=255)

                                                                                                             tCTACAAATACATATATTGTACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGCCGAACTTTCCCCCTTTCCATTAATCATTATTGTACAACGGTgttgtt  >  2:280231/1‑148 (MQ=255)

TCTTATTAACTTTGTCCATTAAGTCACCCTAATGTTTTACTTAATAAGCTAACGAATGAGCCACATCCGGGATAGCATCCGCCGATCTATTCGATCACTATCCTCCTCGTCTACAAATACATATATTGCACTCTATAAAGGCCACTCATATATTAACCTTTAATCTTCAAATACAAATATTTATTTGCACAGGCGCTTTAACTGTACTGCCGAACTTTCCCCCTTTCCATTAATCATTATTGTACAACGGTGTTGTT  >  CP000730/2272605‑2272861

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `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