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
A17 F48 I1 R1	90	35.3	1199032	98.5%	1181046	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	289,414	C→A	G298W (GGG→TGG)	argF ←	CP4‑6 prophage; ornithine carbamoyltransferase ArgF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	289,414	0	C	A	100.0%	90.4 / NA	27	G298W (GGG→TGG)	argF	CP4‑6 prophage; ornithine carbamoyltransferase ArgF
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (17/10); total (17/10)

ACGCGCAGCGGACCCAATCACTCCCCAAGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCCGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGCGCGTTCACCTGATACCCG  >  NC_000913/289284‑289550

aCGCGCAGCGGACCCAATCACTCCCCAAGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAg                                                                                                                                 >  1:568283/1‑140 (MQ=255)

            cccAATCACTCCCCAAGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCtt                                                                                                                     >  2:103550/1‑140 (MQ=255)

                aTCACTCCCCAAGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGcc                                                                                                                 >  1:30102/1‑140 (MQ=255)

                 acccTCCCCAAGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCa                                                                                                                <  2:24597/137‑1 (MQ=255)

                          aaGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGc                                                                                                       <  2:568283/140‑1 (MQ=255)

                               ttGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGc                                                                                                  >  2:371298/1‑140 (MQ=255)

                                 gCCATCATCACCGCCTTAATCGTATGCATTCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGt                                                                                                >  2:498369/1‑140 (MQ=255)

                                 gCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGt                                                                                                >  1:99939/1‑140 (MQ=255)

                                 gCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGt                                                                                                >  2:219335/1‑140 (MQ=255)

                                            cGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGgtcgt                                                                                     >  1:431998/1‑140 (MQ=255)

                                              ccTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCTAGCGTAGTCTGGTCGTCa                                                                                   >  2:502853/1‑140 (MQ=255)

                                                      gTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGc                                                                           <  2:485323/140‑1 (MQ=255)

                                                         tGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCgg                                                                        >  1:545787/1‑140 (MQ=255)

                                                             tCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGa                                                                    >  2:592888/1‑140 (MQ=255)

                                                              ccGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGAc                                                                   <  1:436844/140‑1 (MQ=255)

                                                              ccGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGAc                                                                   <  1:219335/140‑1 (MQ=255)

                                                                            ggTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTc                                                     >  2:339328/1‑140 (MQ=255)

                                                                                   cacGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCg                                              <  1:592888/140‑1 (MQ=255)

                                                                                        tGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGttt                                         >  2:179324/1‑139 (MQ=255)

                                                                                        tGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTg                                         >  2:91694/1‑140 (MQ=255)

                                                                                            cgccgcCGACTCAAACACCTCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCgg                                     >  2:126659/1‑140 (MQ=255)

                                                                                               cgcctACTCAAACACCTCGTCCGTCATCTCCATACAGCCGTGCAGATCGAGCTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAGCGCCGCCAGACAGTGCAGGAACTTCACGTTCGGTTTGTCGGTCa                                  <  2:99939/140‑1 (MQ=255)

                                                                                                               tCGTCCGTCACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTgcgc                  >  1:63537/1‑140 (MQ=255)

                                                                                                                cgtccgtcACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGcgcg                 <  2:129164/140‑1 (MQ=255)

                                                                                                                  tccgtcACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGCGCGtt               >  1:553784/1‑140 (MQ=255)

                                                                                                                  tccgtcACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGCGCGtt               <  1:502853/140‑1 (MQ=255)

                                                                                                                    cgtcACCTCCATCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGCGCGTTCa             <  1:33900/140‑1 (MQ=255)

                                                                                                                               tCCAGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGCGCGTTCACCTGATACCcg  <  1:398552/140‑1 (MQ=255)

ACGCGCAGCGGACCCAATCACTCCCCAAGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCCGCCGTGCAGATCGAACTCCTTCGCCATCTGCTTGCCGAGCGTAGTCTGGTCGTCATGGAACGCCGGCAGACAGTGCAGGAACTTCACGTTCGGGTTGTCGGTCAGCGCCATCATCTGCGCGTTCACCTGATACCCG  >  NC_000913/289284‑289550

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A