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
A7 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,503,125	G→A	223 (TAG→TAA)	ydcL →	lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,503,125	0	G	A	100.0%	111.1 / NA	35	223 (TAG→TAA)	ydcL	lipoprotein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/21); total (14/21)

AGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGAC  >  NC_000913/1502999‑1503222

aGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACgcgc                                                                                       <  2:1280972/139‑1 (MQ=255)

aGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACgcgc                                                                                       <  2:1221098/139‑1 (MQ=255)

    gttcgtCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATc                                                                                   >  1:161117/1‑139 (MQ=255)

             ggCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATgg                                                                          <  1:1013349/139‑1 (MQ=255)

             ggCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATgg                                                                          <  2:161117/139‑1 (MQ=255)

                  aGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGAcgc                                                                                         >  2:189354/1‑119 (MQ=255)

                  aGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGAcgc                                                                                         <  1:189354/119‑1 (MQ=255)

                          aCCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCg                                                             <  2:579571/139‑1 (MQ=255)

                             tGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTg                                                          <  1:809992/139‑1 (MQ=255)

                              gAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCAt                                                                                    >  2:619560/1‑112 (MQ=255)

                              gAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCAt                                                                                    <  1:619560/112‑1 (MQ=255)

                               aaTAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTgcg                                                        <  2:360429/139‑1 (MQ=255)

                                         gTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAg                                                                              <  1:1170903/107‑1 (MQ=255)

                                         gTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAg                                                                              >  2:1170903/1‑107 (MQ=255)

                                           aCGCCAATGGCCTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAAcccc                                            <  2:1043785/139‑1 (MQ=255)

                                                                          ttATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGcc                                                                                      <  1:139246/66‑1 (MQ=255)

                                                                          ttATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGcc                                                                                      >  2:139246/1‑66 (MQ=255)

                                                                                   aCATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAggg                                 >  1:592568/1‑110 (MQ=255)

                                                                                   aCATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAggg                                 <  2:592568/110‑1 (MQ=255)

                                                                                    cATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTa                                                   <  1:364064/91‑1 (MQ=255)

                                                                                    cATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTa                                                   >  2:364064/1‑91 (MQ=255)

                                                                                    cATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTa                                                   <  2:1556719/91‑1 (MQ=255)

                                                                                    cATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTa                                                   >  1:1556719/1‑91 (MQ=255)

                                                                                       ggCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATTCTTCAGGGCGGGGATATAAGGCGCGGttt            >  1:965805/1‑127 (MQ=255)

                                                                                       ggCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGttt            <  2:965805/127‑1 (MQ=255)

                                                                                       ggCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGAc  <  2:1275745/137‑1 (MQ=255)

                                                                                       ggCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGAc  >  1:1275745/1‑137 (MQ=255)

                                                                                                      caTGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCa                                                                                     <  2:1345837/39‑1 (MQ=255)

                                                                                                      caTGTTTGACGTTAACAAAAAGTAATTCCAGACGCGCCa                                                                                     >  1:1345837/1‑39 (MQ=255)

                                                                                                                gTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGgcgc                 >  1:1585075/1‑97 (MQ=255)

                                                                                                                gTTAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGgcgc                 <  2:1585075/97‑1 (MQ=255)

                                                                                                                  tAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTgc                                                         >  2:340289/1‑55 (MQ=255)

                                                                                                                  tAACAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTgc                                                         <  1:340289/55‑1 (MQ=255)

                                                                                                                    aCAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTaaaa                                                <  2:402434/62‑1 (MQ=255)

                                                                                                                    aCAAAAAGTAATTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTaaaa                                                >  1:402434/1‑62 (MQ=255)

AGTCGTTCGTCAGGGCGAAGGTAAAGACCTGAATAACGAAAGTACGCCAATGGCTTTCGAAAATATTAAACAAGTTATTGATGACATGGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGAC  >  NC_000913/1502999‑1503222

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A