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
A9 F1 I2 R1	78	48.0	2243616	94.8%	2126947	114.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,451,938	G→A	R117C (CGT→TGT)	rplD ←	50S ribosomal subunit protein L4

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,451,938	0	G	A	100.0%	98.2 / NA	29	R117C (CGT→TGT)	rplD	50S ribosomal subunit protein L4
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/15); total (14/15)

GCGCAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACGATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGA  >  NC_000913/3451803‑3452069

gcgcAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATc                                                                                                                                  >  2:257735/1‑139 (MQ=255)

   cAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTg                                                                                                                               <  1:1112213/139‑1 (MQ=255)

              aGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGtt                                                                                                                    <  1:257735/139‑1 (MQ=255)

                                        gatCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGcgccg                                                                                          <  1:921791/139‑1 (MQ=255)

                                              cacaTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTAc                                                                                    >  2:981983/1‑139 (MQ=255)

                                                 aTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACAtc                                                                                 <  1:146441/139‑1 (MQ=255)

                                                              aTGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACtt                                                                    >  2:573910/1‑139 (MQ=255)

                                                               tGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttt                                                                   >  1:160568/1‑139 (MQ=255)

                                                               tGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttt                                                                   >  2:607542/1‑139 (MQ=255)

                                                                gTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACtttt                                                                  >  2:799753/1‑139 (MQ=255)

                                                                 tCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttttt                                                                 <  1:799753/139‑1 (MQ=255)

                                                                    ttCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGAc                                                              >  2:136723/1‑139 (MQ=255)

                                                                      cAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACtg                                                            >  2:616435/1‑139 (MQ=255)

                                                                           tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACa                                                                                                              <  1:97129/84‑1 (MQ=255)

                                                                           tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACa                                                                                                              >  2:97129/1‑84 (MQ=255)

                                                                                 ccAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCgg                                                 <  2:160568/139‑1 (MQ=255)

                                                                                           aGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAgcagca                                       <  1:136723/139‑1 (MQ=255)

                                                                                                          tACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGccacca                        <  1:611422/139‑1 (MQ=255)

                                                                                                                 aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGc                             >  2:290284/1‑127 (MQ=255)

                                                                                                                 aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGc                             <  1:290284/127‑1 (MQ=255)

                                                                                                                 aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGcc                 >  1:3295/1‑139 (MQ=255)

                                                                                                                      ctcGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttttt                                                                 >  2:282135/1‑86 (MQ=255)

                                                                                                                      ctcGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttttt                                                                 <  1:282135/86‑1 (MQ=255)

                                                                                                                         gACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGGAGCAAAGGTCACGCCACCAGAACGCCAGATCggg         <  2:976549/139‑1 (MQ=255)

                                                                                                                         gACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCggg         <  2:1070280/139‑1 (MQ=255)

                                                                                                                         gACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCggg         >  2:25832/1‑139 (MQ=255)

                                                                                                                                aTCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGa  <  2:551914/139‑1 (MQ=255)

                                                                                                                                aTCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGa  <  2:973335/139‑1 (MQ=255)

                                                                                                                                aTCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGa  >  1:551914/1‑139 (MQ=255)

GCGCAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACGATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGA  >  NC_000913/3451803‑3452069

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A