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
A23 F110 I1 R1	26	27.1	575272	96.9%	557438	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	522,654	C→T	T169I (ACA→ATA)	yaaT →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	522,654	0	C	T	100.0%	54.8 / NA	17	T169I (ACA→ATA)	yaaT	hypothetical protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (7/10); total (7/10)

TGATTTTAGAAAATTAGTAAAAATATTAGCGCAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTACATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAAAATTTCTGGTGCATGTGGTCGTTTGATGTGTTGTT  >  CP000730/522520‑522761

tGATTTTAGAAAATTAGTAAAAATATTAGCGCAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATAttttt                                                                                                       <  1:148567/141‑1 (MQ=255)

     ttAGAAAATTAGTAAAAATATTAGCGCAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAgggg                                                                                                  <  1:143319/141‑1 (MQ=255)

                  aaaaaTATTAGCGCAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGt                                                                                     >  2:231255/1‑141 (MQ=255)

                         ttAGCGCAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGAtt                                                                              <  2:45266/141‑1 (MQ=255)

                         ttAGAGCAACATATAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGAtt                                                                              <  2:24166/141‑1 (MQ=255)

                             cgcAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGa                                                                          >  1:172992/1‑141 (MQ=255)

                             cgcAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGAAGGTCGTTATGTTGTTCTATATGTTTAGGGGATTTTGAACCAGTATCGATTAAGa                                                                          >  2:253782/1‑141 (MQ=255)

                                 aCATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGc                                                                      <  2:250417/141‑1 (MQ=255)

                                         aaaCACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATc                                                              <  2:148927/141‑1 (MQ=255)

                                                     aGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCAt                                                  <  2:210767/141‑1 (MQ=255)

                                                          agaCAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAAt                                             >  2:66130/1‑141 (MQ=255)

                                                                  tGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTaa                                     >  1:33100/1‑141 (MQ=255)

                                                                                 aGCCAAATTGCTTGGCGGTATCGGACCTTGGGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAACATTTCTGGTGCAtg                      >  2:199649/1‑141 (MQ=255)

                                                                                           cTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAAAATTTCTGGTGCATGTGGTCGTTTg            >  1:222141/1‑141 (MQ=255)

                                                                                           cTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAAAATTTCTGGTGCATGTGGTCGTTTg            <  1:203708/141‑1 (MQ=255)

                                                                                                 ggTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAAAATTTCTGGTGCATGTGGTCGTTTGATgtgt      <  2:287436/141‑1 (MQ=255)

                                                                                                     tCGGACCTTGTGGTAGGTCGTTATGTTGTCCTATATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAAAATTTCTGGTGCATGTGGTCGTTTGATGTgttgtt  <  1:284524/141‑1 (MQ=255)

TGATTTTAGAAAATTAGTAAAAATATTAGCGCAACATTTAAAAACACGTATCGAGTTGAGACAAATTGGTGTAAGGGATGAAGCCAAATTGCTTGGCGGTATCGGACCTTGTGGTAGGTCGTTATGTTGTTCTACATTTTTAGGGGATTTTGAACCAGTATCGATTAAGATGGCTAAGGATCAAAATTTATCATTAAATCCAACTAAAATTTCTGGTGCATGTGGTCGTTTGATGTGTTGTT  >  CP000730/522520‑522761

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