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 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,134,823	G→A	231 (TAG→TAA)	yghT →	putative ATP‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,134,823	0	G	A	100.0%	119.5 / NA	38	231 (TAG→TAA)	yghT	putative ATP‑binding protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/20); total (18/20)

AAGATTGCCATAACGCCACAGTTAACCTTTGGTGGTGCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCGTGGTTATCACTAGTCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGGTAAAGTAAATACCCACGCCA  >  NC_000913/3134686‑3134948

aaGATTGCCATAACGCCACAGTTAACCTTTGGTGGTGCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATc                                                                                                                             <  1:266305/139‑1 (MQ=255)

                 acaGTTAACCTTTGGTGGTGCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCg                                                                                                            <  1:258715/139‑1 (MQ=255)

                             tggtggTGCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGc                                                                                                               >  2:775144/1‑124 (MQ=255)

                             tggtggTGCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGc                                                                                                               <  1:775144/124‑1 (MQ=255)

                                tggtgCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCggg                                                                                             <  1:457265/139‑1 (MQ=255)

                                             gTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCg                                                                                                            >  2:754974/1‑111 (MQ=255)

                                             gTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCg                                                                                                            <  1:754974/111‑1 (MQ=255)

                                                  tatCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGTAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTaa                                                                           >  1:457942/1‑139 (MQ=255)

                                                  tatCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTaa                                                                           >  2:898638/1‑139 (MQ=255)

                                                       aTGCCAATCAGCCACTGGAATAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATc                                                                                                                             >  1:595014/1‑84 (MQ=255)

                                                       aTGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATc                                                                                                                             <  2:595014/84‑1 (MQ=255)

                                                       aTGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCaa                                                                      >  2:419515/1‑139 (MQ=255)

                                                            aaTCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGTAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCa                                                                 <  2:457942/139‑1 (MQ=255)

                                                                     cTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 <  2:307057/98‑1 (MQ=255)

                                                                     cTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 >  1:307057/1‑98 (MQ=255)

                                                                         aaCAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTa                                                    <  1:12445/139‑1 (MQ=255)

                                                                            aGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 <  1:749215/91‑1 (MQ=255)

                                                                            aGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGC‑CGGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 >  2:749215/1‑91 (MQ=255)

                                                                                gttggttgATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATc                                                                        <  2:764635/112‑1 (MQ=255)

                                                                                gttggttgATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATc                                                                        >  1:764635/1‑112 (MQ=255)

                                                                                   ggttgATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 >  2:17340/1‑84 (MQ=255)

                                                                                   ggttgATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 <  1:17340/84‑1 (MQ=255)

                                                                                        aTGCAGAAAAAGCGATTACGGATTTTATGACCTCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCagaaag                                     >  1:600094/1‑139 (MQ=255)

                                                                                        aTGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGcc                                                                                                              >  2:161053/1‑66 (MQ=255)

                                                                                        aTGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGcc                                                                                                              <  1:161053/66‑1 (MQ=255)

                                                                                        aTGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCa                                                                 >  2:80687/1‑111 (MQ=255)

                                                                                        aTGCAGAAAAAGCGATTACGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCa                                                                 <  1:80687/111‑1 (MQ=255)

                                                                                                         aCGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGgta                    <  1:898638/139‑1 (MQ=255)

                                                                                                          cGGATTTTATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGgtaa                   <  1:419515/139‑1 (MQ=255)

                                                                                                               tttATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTTAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGgtaaagtaa              <  2:600094/139‑1 (MQ=255)

                                                                                                               tttATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATg                                                              >  2:949161/1‑91 (MQ=255)

                                                                                                               tttATGACCGCGCG‑GGTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATg                                                              <  1:949161/91‑1 (MQ=255)

                                                                                                                          cgcgggTTATCACTAATCAAAAATGGAAATGCCCGATCGCCTGGAc                                                                                                 >  2:621186/5‑46 (MQ=255)

                                                                                                                          cgcgggTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGAc                                                                                                 <  1:621186/42‑1 (MQ=255)

                                                                                                                          cgcgggTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTgccgcc                        >  2:311010/5‑119 (MQ=255)

                                                                                                                          cgcgggTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTgccgcc                        <  1:311010/115‑1 (MQ=255)

                                                                                                                          cgcgggTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGGTAAAGTAAATACCCACGc    >  2:745149/5‑139 (MQ=255)

                                                                                                                            cgggTTATCACTAATCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGGTAAAGTAAATACCCACGCCa  >  2:560258/3‑139 (MQ=255)

AAGATTGCCATAACGCCACAGTTAACCTTTGGTGGTGCACAACTGGTTGATATCGATGCCAATCAGCCACTGGAACAGGTGTTGGTTGATGCAGAAAAAGCGATTACGGATTTTATGACCGCGCGTGGTTATCACTAGTCAAAAATGGAAATGCCCGATCGCCAGGACCGGGCATTTTCAGGAAGGTTAAATCAACTGCAATGCTATCCAGTACAGCCCACCAGAAAGAAAAATTGCCGCCGGTAAAGTAAATACCCACGCCA  >  NC_000913/3134686‑3134948

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A