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
A11 F18 I1 R1	7	7.9	173730	93.1%	161742	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,187,071	C→T	R331K (AGA→AAA)	rsbU ←	sigma factor B regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,187,071	0	C	T	100.0%	25.8 / NA	9	R331K (AGA→AAA)	rsbU	sigma factor B regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (3/6); total (3/6)

ATTACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTCTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTA  >  CP000730/2186946‑2187194

attACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCaaaa                                                                                                              >  2:39961/1‑141 (MQ=255)

                      atatTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTAtt                                                                                        >  1:29500/1‑141 (MQ=255)

                                         gcgcTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTaaa                                                                     <  2:12050/141‑1 (MQ=255)

                                                   caccaTATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCAt                                                           <  1:32084/141‑1 (MQ=255)

                                                      aataattatctttCAAGTTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTCAATTAGGTTACTTTTTTTATAATCAAAATTGTCATTTCATCTTTTTTATTTGGGTTGTGAAGCTTTAAAATTGCCTCATAGa                                                        <  2:72714/140‑1 (MQ=255)

                                                                              ataCCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGt                                <  2:67754/141‑1 (MQ=255)

                                                                                               ttCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGtttt               <  2:28387/141‑1 (MQ=255)

                                                                                                 cTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGtttttt             >  1:26989/1‑141 (MQ=255)

                                                                                                            ttttAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTa  <  1:23872/141‑1 (MQ=255)

ATTACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTCTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTA  >  CP000730/2186946‑2187194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A