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
A14 F1 I1 R1	770	68.5	3470224	91.7%	3182195	103.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,212,703	C→T	135 (TAG→TAA)	ycgX ←	DUF1398 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,212,703	0	C	T	100.0%	79.8 / NA	26	135 (TAG→TAA)	ycgX	DUF1398 family protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (14/12); total (14/12)

GTGATTATTTATGGGTGACAATAAAAAGACAGTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGCTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTTATGATTAACATCAGTAACCCACCGGAAAACGCCCGCGCCTGCCAGTGTTGAACAG  >  NC_000913/1212576‑1212835

gTGATTATTTATGGGTGACAATAAAAAGACAGTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATgg                                                                                                                           >  2:889218/1‑139 (MQ=255)

                 aCAATAAAAAGACAGTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTa                                                                                                                               <  1:469808/118‑1 (MQ=255)

                 aCAATAAAAAGACAGTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTa                                                                                                                               >  2:469808/1‑118 (MQ=255)

                 aCAATAAAAAGACAGTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACAt                                                                                                          >  1:765244/1‑139 (MQ=255)

                               gTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATaaa                                                                                            <  1:889218/139‑1 (MQ=255)

                                     atcatcCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTaa                                                                                                                              >  2:523056/1‑99 (MQ=255)

                                     atcatcCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTaa                                                                                                                              <  1:523056/99‑1 (MQ=255)

                                                    aGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTtta                                                                                                                       >  1:469022/1‑91 (MQ=255)

                                                    aGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTtta                                                                                                                       <  2:469022/91‑1 (MQ=255)

                                                    aGTCTCTGCACTTTTA‑TTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATAT‑AAAGCGTATTATCAATGGCgtagta                                                                     >  1:550940/1‑139 (MQ=255)

                                                          tGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTg                                                                 >  2:188454/1‑139 (MQ=255)

                                                                  tATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGtt                                                         <  1:188454/139‑1 (MQ=255)

                                                                         aTTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTaa                                                                                                                              >  1:796921/1‑63 (MQ=255)

                                                                         aTTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTaa                                                                                                                              <  2:796921/63‑1 (MQ=255)

                                                                          ttATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTTATGATTaa                                                 <  2:765244/139‑1 (MQ=255)

                                                                           tATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATg                                                                                                                            >  2:1290807/1‑63 (MQ=255)

                                                                           tATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATg                                                                                                                            <  1:1290807/63‑1 (MQ=255)

                                                                                 aaTGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTTATGATTAACATCAGt                                          >  2:532221/1‑139 (MQ=255)

                                                                                  aTGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTAc                                                                                                            >  2:350934/1‑72 (MQ=255)

                                                                                  aTGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTAc                                                                                                            <  1:350934/72‑1 (MQ=255)

                                                                                               ttATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATaaaa                                                                                           <  1:708706/76‑1 (MQ=255)

                                                                                               ttATGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATaaaa                                                                                           >  2:708706/1‑76 (MQ=255)

                                                                                                  tGAAGCATTTCTTAAGTATCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTTATGATTAACATCAGTAACCCACCGGAAAACGc                         <  1:532221/139‑1 (MQ=255)

                                                                                                                    tCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTTATGATTAACATCAGTAACCCACCGGAAAACGCCCGCGCCTGCCAGTGTTg       >  1:768739/1‑139 (MQ=255)

                                                                                                                    tCCAACTTTAGTTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTCATGATTAACATCAGTAACCCACCGGAAAACGCCCGCGCCTGCCAGTGTTg       >  2:304380/1‑139 (MQ=255)

                                                                                                                        aCTTTAGTTAGATTAATGGTTTATTATTTTCTACATGTTCAATATAT‑AAAGCGTATTATCAATGGCGTAGTAACTGCGTTCGTTATGATTAACATCAGTAACCCACCGGAAAACCCCCGCGCCTGCCAGTGTTGAACAg  <  2:550940/139‑1 (MQ=255)

GTGATTATTTATGGGTGACAATAAAAAGACAGTATTAATCATCCATAGAGATAGTCTCTGCACTTTTATTTCCATTATGCTAATGCCTTACTGAATTATGAAGCATTTCTTAAGTATCCAACTTTAGCTAGATTAATGGTTTATTATTTTCTACATCTTCAATATATAAAAGCGTATTATCAATGGCGTAGTAACTGCGTTTGTTATGATTAACATCAGTAACCCACCGGAAAACGCCCGCGCCTGCCAGTGTTGAACAG  >  NC_000913/1212576‑1212835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A