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
A15 F116 I1 R1	34	38.2	765948	97.1%	743735	148.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,027,561	G→C	T129S (ACC→AGC)	vraS ←	sensor histidine kinase VraS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,027,561	0	G	C	100.0%	165.1 / NA	44	T129S (ACC→AGC)	vraS	sensor histidine kinase VraS
Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (25/19); total (25/19)

TTCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGA  >  CP000730/2027417‑2027694

ttCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTa                                                                                                                                    >  1:39683/1‑148 (MQ=255)

ttCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTa                                                                                                                                    >  1:76493/1‑148 (MQ=255)

    tttCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtt                                                                                                                                <  2:313283/148‑1 (MQ=255)

      tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  1:195314/1‑148 (MQ=255)

      tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  2:198025/1‑148 (MQ=255)

      tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  2:246280/1‑148 (MQ=255)

      tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTCCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  2:250784/1‑148 (MQ=255)

           gatagcagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGtt                                                                                                                         <  2:309398/148‑1 (MQ=255)

           gatagcagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGtt                                                                                                                         <  2:339149/148‑1 (MQ=255)

                cagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAg                                                                                                                    >  1:222430/1‑148 (MQ=255)

                 agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGt                                                                                                                   >  2:301693/1‑148 (MQ=255)

                 agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGt                                                                                                                   >  2:337538/1‑148 (MQ=255)

                 agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGt                                                                                                                   >  2:4211/1‑148 (MQ=255)

                                 gCCGCAAAAAGTTGCTGACTATCAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAAtt                                                                                                   >  1:40594/1‑148 (MQ=255)

                                              gCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAgg                                                                                      <  2:257517/148‑1 (MQ=255)

                                              gCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAgg                                                                                      <  2:122654/148‑1 (MQ=255)

                                                   cTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACaa                                                                                 >  2:39497/1‑148 (MQ=255)

                                                     aaCAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAgt                                                                               <  2:348499/148‑1 (MQ=255)

                                                     aaCAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAgt                                                                               <  1:38442/148‑1 (MQ=255)

                                                         gAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTAt                                                                           <  1:176910/148‑1 (MQ=255)

                                                         gAATCGTAAAGTTCTCGTGCTAGTCTTTGACGTTCATATTCAATAATCTTTTTAACTTTCACATCATTTATATTATGATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTAt                                                                           <  2:347672/148‑1 (MQ=255)

                                                            tCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGt                                                                        >  1:247560/1‑148 (MQ=255)

                                                                 aaGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATaaa                                                                   >  2:2440/1‑148 (MQ=255)

                                                                 aaGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATaaa                                                                   >  2:295485/1‑148 (MQ=255)

                                                                         gTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGt                                                           <  2:39683/148‑1 (MQ=255)

                                                                         gTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGt                                                           <  2:76493/148‑1 (MQ=255)

                                                                         gTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGt                                                           <  2:92016/148‑1 (MQ=255)

                                                                            cTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGttta                                                        >  1:245218/1‑147 (MQ=255)

                                                                            cTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTc                                                        >  2:377026/1‑148 (MQ=255)

                                                                             tAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCa                                                       <  1:331121/148‑1 (MQ=255)

                                                                                 cTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtat                                                   >  1:80409/1‑148 (MQ=255)

                                                                                 cTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtat                                                   >  1:148884/1‑148 (MQ=255)

                                                                                    tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  1:148135/1‑148 (MQ=255)

                                                                                    tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  1:232722/1‑148 (MQ=255)

                                                                                    tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  1:261076/1‑148 (MQ=255)

                                                                                    tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  2:355293/1‑148 (MQ=255)

                                                                                              cTTCAATAATCTTTTTATCTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATAtt                                      <  2:359074/148‑1 (MQ=255)

                                                                                                 cAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTg                                   >  2:311213/1‑148 (MQ=255)

                                                                                                     aatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCa                               <  1:301693/148‑1 (MQ=255)

                                                                                                     aatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCa                               <  1:4211/148‑1 (MQ=255)

                                                                                                     aatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATACTTCTATATTTTGATCa                               <  1:337538/148‑1 (MQ=255)

                                                                                                        cTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTa                            >  1:222038/1‑148 (MQ=255)

                                                                                                                           ttAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCtt         <  2:210887/148‑1 (MQ=255)

                                                                                                                                  tataATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGa  <  1:295485/148‑1 (MQ=255)

TTCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGA  >  CP000730/2027417‑2027694

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A