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 F28 I1 R1	252	48.5	1661298	98.8%	1641362	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,266,897	(T)_5→4	coding (169/939 nt)	tdcA ←	DNA‑binding transcriptional activator TdcA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,266,893	0	T	.	100.0%	148.3 / NA	36	coding (173/939 nt)	tdcA	DNA‑binding transcriptional activator TdcA
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (23/13); total (23/13)

CCAAATGAGACTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTATTTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTGAAAGA  >  NC_000913/3266761‑3267025

ccAAATGAGACTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTAttttccgc                                                                                                                               <  2:492905/140‑5 (MQ=255)

ccAAATGAGACTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTAttttccgc                                                                                                                               <  1:403857/140‑5 (MQ=255)

 cAAATGAGACTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGca                                                                                                                             <  1:647780/140‑1 (MQ=255)

  aaaTGAGACTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGcac                                                                                                                            >  1:500897/1‑140 (MQ=255)

      gagaCTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACt                                                                                                                        <  1:277055/140‑1 (MQ=255)

              caccacCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCcac                                                                                                                >  2:123923/1‑140 (MQ=255)

               cccaccGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCcaca                                                                                                               <  2:61800/139‑1 (MQ=255)

                    cGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCaaa                                                                                                          >  2:631217/1‑140 (MQ=255)

                      ccTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCGCCACTAATTCCACACCAAaat                                                                                                        >  2:754672/1‑140 (MQ=255)

                      ccTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaat                                                                                                        >  1:119688/1‑140 (MQ=255)

                       cTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaata                                                                                                       <  1:165892/140‑1 (MQ=255)

                         cAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaataat                                                                                                     <  1:95143/140‑1 (MQ=255)

                                cATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAat                                                                                              <  1:754672/140‑1 (MQ=255)

                                 aTACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaata                                                                                                       >  2:694716/1‑130 (MQ=255)

                                 aTACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaata                                                                                                       <  1:694716/130‑1 (MQ=255)

                                 aTACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAata                                                                                             >  1:486822/1‑140 (MQ=255)

                                 aTACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAata                                                                                             >  1:176988/1‑140 (MQ=255)

                                 aTACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAata                                                                                             >  1:115417/1‑140 (MQ=255)

                                 aTACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAata                                                                                             >  1:480248/1‑140 (MQ=255)

                                   aCCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATc                                                                                           >  2:741243/1‑140 (MQ=255)

                                        ttATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTaa                                                                                      >  1:344986/1‑140 (MQ=255)

                                         tATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaata                                                                                                       >  1:671717/1‑122 (MQ=255)

                                         tATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAaata                                                                                                       <  2:671717/122‑1 (MQ=255)

                                                   aCCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTg                                                                           <  2:344986/140‑1 (MQ=255)

                                                   aCCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTg                                                                           <  2:480248/140‑1 (MQ=255)

                                                       tatTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACgg                                                                       <  2:471194/140‑1 (MQ=255)

                                                         tttttCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGcc                                                                     >  2:675517/1‑140 (MQ=255)

                                                           tttcatttcaCGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCgg                                                                   <  1:741243/140‑1 (MQ=255)

                                                                     cGGGTAATGGATTCGGAACGGGAGAGTAACAATTTACCGGCAGGTGTTAATGTTACACCGGGA‑TTTTCCGCACCACTAATTCCACTCCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAAc                                                         >  2:548662/1‑140 (MQ=255)

                                                                                         ggAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCagccga                                     >  1:415987/1‑140 (MQ=255)

                                                                                          gagaGTAACAATTGACCGGAAGTTTTAAATTTTACCCCGGT‑TTTTCCCGCACCATTAATTCCACCCCAAAAAATTCTCCAATATCTTTAATGATTTTACGGACGGCCGGTTGAGTTAACCCTAATTATTTTGCagccgag                                    <  2:631917/140‑1 (MQ=255)

                                                                                                    aTTGACCGGCAGGTTTTAATGTTACACGGGTA‑TTTTCCGCACCACTAATCCCACACAAAAATAATCTTAAATATCGTTAATGATTTTACTGACGGCGGGTTGAGTTACCCCTAATTCTTTGGCAGCCGAGCCGATAGAAc                          <  2:119688/140‑1 (MQ=255)

                                                                                                    aTTGACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACAAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTACCCCTAATTCTTTTGCAGCCGAGCCGATAGAAc                          <  1:631217/140‑1 (MQ=255)

                                                                                                       gACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCAc                       >  2:84243/1‑140 (MQ=255)

                                                                                                       gACCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCAc                       >  2:281634/1‑140 (MQ=255)

                                                                                                        aCCGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACt                      >  1:33167/1‑140 (MQ=255)

                                                                                                         ccGGCAGGTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACtt                     >  2:136120/1‑140 (MQ=255)

                                                                                                               ggTGTTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATg               >  1:89641/1‑140 (MQ=255)

                                                                                                                 tgtTAATGTTACACCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGAc             <  1:136120/140‑1 (MQ=255)

                                                                                                                       tGTTACACCGGT‑TTTTTCCGCCCCACAAATCCCACACAAAAATAATCTTAAATATCGTAAATGATTTTACTGACGGCCGGTTGAGTTACCCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTg       <  2:115417/140‑1 (MQ=255)

                                                                                                                           acacCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTGAAAg   >  1:27371/1‑140 (MQ=255)

                                                                                                                            cacCGGTA‑TTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCTTTAATGATTTTACTGACGGCCGGTTGATTTACCCCTAATTTTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTGAAAGa  <  2:176988/140‑1 (MQ=255)

                                                                                                                             acCGGTA‑TTTTCCGCACCACT‑ATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTGaa     <  2:4144/135‑1 (MQ=255)

                                                                                                                             acCGGTA‑TTTTCCGCACCACT‑ATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTGaa     >  1:4144/1‑135 (MQ=255)

CCAAATGAGACTTCCACCACCGCCTCAGAAGACATACCGCTTATCTCATTAACCATATTTTTCATTTCACGGGTAATGGATTCGGAACGGGAGAGTAACAATTGACCGGCAGGTGTTAATGTTACACCGGTATTTTTCCGCACCACTAATTCCACACCAAAATAATCTTCAATATCGTTAATGATTTTACTGACGGCCGGTTGAGTTAACCCTAATTCTTTTGCAGCCGAGCCGATAGAACCACTTCTAATGACTTCCTGAAAGA  >  NC_000913/3266761‑3267025

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A