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
A13 F6 I2 R1	16	27.9	994488	92.8%	922884	143.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	4,604,632	C→A	A186E (GCA→GAA)	bglJ →	bgl operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	4,604,632	0	C	A	100.0%	109.8 / NA	33	A186E (GCA→GAA)	bglJ	bgl operon transcriptional activator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (16/17); total (16/17)

CTGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGCACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGCCGGGTTTACTTC  >  NC_000913_3_pae_tpiA/4604496‑4604777

cTGAACAACCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTaa                                                                                                                                       <  1:95812/149‑1 (MQ=255)

 taaaCAATCAGTGGTACATTAACCAAAGCCGGACGTGAAGCCCGACGGAGAGAGAAATACTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAAt                                                                                                                                      <  1:16765/147‑1 (MQ=255)

 tGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATGGCTGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAAATTAAATTTaag                                                                                                                                      >  2:281370/1‑148 (MQ=255)

    aCAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAAtgtg                                                                                                                                   >  1:332113/1‑149 (MQ=255)

        tCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGAAGGAGAGAGAAATATTGAGCTTTATGTCACGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATACGTGAACATAAATCTAATGTGATGt                                                                                                                               >  2:297647/1‑149 (MQ=255)

        tCAGTGCTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATCTTGCGCTTTATGTCGCGTGGCTTCTCCATGACACAAATTGCCGAGCAACTTAAACGCAGTATCAAAACGATCCGTGAACATAAATTTAACGTGATGt                                                                                                                               >  2:297552/1‑149 (MQ=255)

              gTACATTAACCAAAGCCGGACGTTAACCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACCCAAATTGCCGAGCAGCTTAAACGCAATCTCAAAAGACTCCGTGAAACTAAATTTATTATGATGTTGAAAc                                                                                                                         >  1:2432/1‑149 (MQ=255)

                aCATTAACCAAAGGCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTg                                                                                                                       <  1:266747/149‑1 (MQ=255)

                       ccAAAGCCGGAAGTTAAGCCCGACGGAGAGAGAAATAGTGGGGTTTATGTCGCGTGGTGACTCAATGACACAAAGTGCCGGGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCa                                                                                                                <  1:146029/149‑1 (MQ=255)

                                              cGGAGAGAGAAATATTGCGCTTTATGTCGGGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCCAACAAGGGTGTCAGTTCTGACGCAGGGTTGTTGGAg                                                                                         <  1:492361/149‑1 (MQ=255)

                                                      gaAATATTGCGCTTTATGTCGCGTGGCTACACAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGa                                                                                 <  1:327651/149‑1 (MQ=255)

                                                        aaTATTTCGCTTTATGTCGCGTGGTTATTCAATGAAAAAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGata                                                                               <  1:251832/149‑1 (MQ=255)

                                                        aaTATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGata                                                                               <  1:211554/149‑1 (MQ=255)

                                                              gcgcTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATTCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGt                                                                         >  2:314473/1‑149 (MQ=255)

                                                                  tttATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTtatg                                                                     >  2:262369/1‑149 (MQ=255)

                                                                   ttATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTtatgt                                                                    <  1:276573/149‑1 (MQ=255)

                                                                            gTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCATGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGtt                                                                                                             >  2:169997/1‑99 (MQ=255)

                                                                            gTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCATGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGtt                                                                                                             <  1:169997/99‑1 (MQ=255)

                                                                                   cTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATTCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGaaa                                                    <  1:314473/149‑1 (MQ=255)

                                                                                    tCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGGCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCAATGCGAAAc                                                   >  1:440876/1‑149 (MQ=255)

                                                                                      aaTGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACaa                                                 >  1:177954/1‑149 (MQ=255)

                                                                                           cacaAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAAt                                            >  2:194517/1‑149 (MQ=255)

                                                                                             caAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAAtgt                                          <  1:388478/149‑1 (MQ=255)

                                                                                                            cTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTa                           >  2:441936/1‑149 (MQ=255)

                                                                                                            cTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTa                           >  2:69053/1‑149 (MQ=255)

                                                                                                                   gCAATATAAAAACGATCCGTGAACAGAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGCCGCAGGGTTGCTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCa                    <  2:2432/149‑1 (MQ=255)

                                                                                                                    aaaTATCAAAACGTTCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCat                   <  2:217946/148‑1 (MQ=255)

                                                                                                                      atatCAAAACGACCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGTatga                 <  1:455691/149‑1 (MQ=255)

                                                                                                                       tatCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCa                                    <  2:32267/129‑1 (MQ=255)

                                                                                                                       tatCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCa                                    >  1:32267/1‑129 (MQ=255)

                                                                                                                         tCAAAACGATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGc              >  2:88140/1‑149 (MQ=255)

                                                                                                                                gATCCGTGAACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGCCGGGttt       <  1:332095/149‑1 (MQ=255)

                                                                                                                                     gTGAACATAAATTTAATGTAATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATACGCGGTTTACTTc  >  2:333832/1‑149 (MQ=255)

CTGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGCACATAAATTTAATGTGATGTCGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGCCGGGTTTACTTC  >  NC_000913_3_pae_tpiA/4604496‑4604777

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A