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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,124,503	T→C	H275R (CAC→CGC)	mdtH ←	multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,124,503	0	T	C	100.0%	119.7 / NA	34	H275R (CAC→CGC)	mdtH	multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/14); total (20/14)

TAAGGTTTCACGCGCAGGCTCGGCAATGATCGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGCAGCATCAGCATCACT  >  NC_000913/1124364‑1124649

tAAGGTTTCACGCGAAGGCTCGGCAATGAACGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACg                                                                                                                                          >  1:318759/1‑150 (MQ=255)

  aGGTTTCACGCGCAGGCTCGGCAATGATCGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGaaa                                                                                                                                       <  1:288651/151‑1 (MQ=255)

    gTTTCACGCGCAGGCTCGGCAATGATCGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAAt                                                                                                                                     <  2:560165/151‑1 (MQ=255)

           gcgcAGGCTCGGCAATGATCGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTc                                                                                                                              >  2:347378/1‑151 (MQ=255)

                ggCTCGGCAATGATCGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTcc                                                                                                                         >  2:138432/1‑151 (MQ=255)

                              cGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAggg                                                                                                           >  2:223850/1‑151 (MQ=255)

                               gACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGt                                                                                                          >  1:202984/1‑151 (MQ=255)

                                 cccGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGt                                                                                                          >  2:91811/1‑149 (MQ=255)

                                 cccGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGt                                                                                                          >  1:596237/1‑149 (MQ=255)

                                     atatAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCa                                                                                                    <  2:460896/151‑1 (MQ=255)

                                       ataAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCaa                                                                                                   <  2:579962/150‑1 (MQ=255)

                                              aGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACg                                                                                           >  2:450891/1‑151 (MQ=255)

                                                 cAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACgac                                                                                         >  1:520277/1‑150 (MQ=255)

                                                    aTCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACgacagac                                                                                     <  1:643173/151‑1 (MQ=255)

                                                      cAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGacac                                                                                   <  1:223850/151‑1 (MQ=255)

                                                            gAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTc                                                                              >  2:582476/1‑150 (MQ=255)

                                                            gAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCa                                                                             <  1:229333/151‑1 (MQ=255)

                                                                  ttgttgCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGc                                                                        >  1:461247/1‑150 (MQ=255)

                                                                   tgttgCGGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCAt                                                                      >  2:642039/1‑151 (MQ=255)

                                                                   tgttgCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCAt                                                                      >  1:55162/1‑151 (MQ=255)

                                                                       gCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACa                                                                   <  2:496467/150‑1 (MQ=255)

                                                                           gCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCAt                                                              <  1:486434/151‑1 (MQ=255)

                                                                                 gACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACg                                                        <  2:59885/151‑1 (MQ=255)

                                                                                         ccACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAggg                                                >  1:153922/1‑151 (MQ=255)

                                                                                            ccGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGgcgc                                             <  1:335399/151‑1 (MQ=255)

                                                                                                catcatGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCgcc                                          >  1:588252/1‑150 (MQ=255)

                                                                                                               cATTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGAcc                          >  2:250234/1‑151 (MQ=255)

                                                                                                                aTTATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCa                         <  1:661844/151‑1 (MQ=255)

                                                                                                                  tATCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCAt                        >  1:150024/1‑150 (MQ=255)

                                                                                                                   aTCAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATa                       >  2:377492/1‑150 (MQ=255)

                                                                                                                     cAACAGCCCAGCCATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAAtt                    >  2:85699/1‑151 (MQ=255)

                                                                                                                                 cATCAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGcagcatcagc        <  2:55161/151‑1 (MQ=255)

                                                                                                                                    cAACCGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGcagcatcagcat      <  1:615404/150‑1 (MQ=255)

                                                                                                                                       ccGGCGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGCAGCATCAGCATCACt  >  1:401652/1‑151 (MQ=255)

TAAGGTTTCACGCGCAGGCTCGGCAATGATCGACCCGATATAAAACAGACAAATCAGGGTGAAAAGTTGTTGCAGGCCGCTGACCATGCCCACCGGCATCATGCTTAATGACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGCAGCATCAGCATCACT  >  NC_000913/1124364‑1124649

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A