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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,441,436	T→C	N103S (AAC→AGC)	hslJ ←	heat‑inducible lipoprotein involved in novobiocin resistance

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,441,436	0	T	C	100.0%	120.6 / NA	34	N103S (AAC→AGC)	hslJ	heat‑inducible lipoprotein involved in novobiocin resistance
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (17/17); total (17/17)

GGGAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGTTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAT  >  NC_000913/1441304‑1441548

gggAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                            <  1:141306/139‑1 (MQ=255)

              cTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGc                                                                                              >  2:622840/1‑139 (MQ=255)

                  tAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                          <  2:1171384/139‑1 (MQ=255)

                         ttAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                   <  2:521551/139‑1 (MQ=255)

                         ttAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                   >  2:440723/1‑139 (MQ=255)

                               ccGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAGCTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCAcagcat                                                                             <  1:785578/139‑1 (MQ=255)

                                cGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATa                                                                            <  1:622840/139‑1 (MQ=255)

                                  ccAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                   <  2:777040/130‑1 (MQ=255)

                                  ccAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                   >  1:777040/1‑130 (MQ=255)

                                      cTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTc                                                                      <  2:937206/139‑1 (MQ=255)

                                            aGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                <  2:430918/139‑1 (MQ=255)

                                                aaTGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                >  1:1076416/1‑135 (MQ=255)

                                                aaTGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                <  2:1076416/135‑1 (MQ=255)

                                                aaTGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGcc                                                            >  2:907131/1‑139 (MQ=255)

                                                aaTGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGcc                                                            >  2:230111/1‑139 (MQ=255)

                                                    tCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCttt                                                        >  1:921402/1‑139 (MQ=255)

                                                            gCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATa                                                                            <  1:781535/111‑1 (MQ=255)

                                                            gCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATa                                                                            >  2:781535/1‑111 (MQ=255)

                                                               gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                             <  1:440723/139‑1 (MQ=255)

                                                                  gCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCAc                                          >  2:891043/1‑139 (MQ=255)

                                                                            aCTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                   <  2:1032730/88‑1 (MQ=255)

                                                                            aCTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                   >  1:1032730/1‑88 (MQ=255)

                                                                                    gcgGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                        <  1:230111/139‑1 (MQ=255)

                                                                                     cgGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTc                       >  2:259845/1‑139 (MQ=255)

                                                                                                   tgtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGt         <  1:259845/139‑1 (MQ=255)

                                                                                                     tgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCAtt                                                                                                     >  1:480394/1‑45 (MQ=255)

                                                                                                     tgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCAtt                                                                                                     <  2:480394/45‑1 (MQ=255)

                                                                                                       cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCtt                                                         <  2:988351/87‑1 (MQ=255)

                                                                                                       cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCtt                                                         >  1:988351/1‑87 (MQ=255)

                                                                                                       cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTaca     >  2:160258/1‑139 (MQ=255)

                                                                                                       cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCT‑‑AGCGGTTAcaca   >  2:701327/1‑139 (MQ=255)

                                                                                                          cttcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAt  >  1:465254/1‑139 (MQ=255)

                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTa                                     <  1:200663/91‑1 (MQ=255)

                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTa                                     >  2:200663/1‑91 (MQ=255)

GGGAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGTTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAT  >  NC_000913/1441304‑1441548

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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