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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,467,921	C→T	302 (TAG→TAA)	insD1 ←	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,467,921	0	C	T	100.0%	118.0 / NA	38	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/19); total (19/19)

TCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCT  >  NC_000913/1467794‑1468042

tctGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACATTGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAg                                                                                                                >  1:537500/1‑139 (MQ=255)

 ctGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGa                                                                                                               <  1:665088/139‑1 (MQ=255)

    gggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                            <  1:275357/139‑1 (MQ=255)

      gTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCt                                                                                                          >  2:293386/1‑139 (MQ=255)

               ggTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                 <  1:143689/139‑1 (MQ=255)

               ggTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                 <  2:175373/139‑1 (MQ=255)

               ggTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                 <  2:168500/139‑1 (MQ=255)

                   aTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTta                                                                                                                         >  2:697518/1‑111 (MQ=255)

                   aTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTta                                                                                                                         <  1:697518/111‑1 (MQ=255)

                                         tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGtt                                                                                                       >  2:420723/1‑107 (MQ=255)

                                         tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGtt                                                                                                       <  1:420723/107‑1 (MQ=255)

                                         tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCa                                                                       >  1:356668/1‑139 (MQ=255)

                                                        gTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcg                                                        <  2:356668/139‑1 (MQ=255)

                                                        gTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcg                                                        <  2:624778/139‑1 (MQ=255)

                                                                      aCAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGGCATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgc                                          >  1:226089/1‑139 (MQ=255)

                                                                      aCAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                            <  1:634179/73‑1 (MQ=255)

                                                                      aCAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                            >  2:634179/1‑73 (MQ=255)

                                                                      aCAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                            >  1:419100/1‑89 (MQ=255)

                                                                      aCAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                            <  2:419100/89‑1 (MQ=255)

                                                                       cAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                         <  1:452366/139‑1 (MQ=255)

                                                                       cAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                         <  1:211321/139‑1 (MQ=255)

                                                                         aTGCAGGATATTGACTGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCTGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGACATTCCCGTGGCGAGCGATAACCCAGCGCa                                       <  2:537500/139‑1 (MQ=255)

                                                                            cAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTa                                    >  1:768731/1‑139 (MQ=255)

                                                                              ggATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATg                                  >  1:229261/1‑139 (MQ=255)

                                                                                  atTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGa                              >  2:486729/1‑139 (MQ=255)

                                                                                    tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTta                                                                                                                         <  1:393194/46‑1 (MQ=255)

                                                                                    tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTta                                                                                                                         >  2:393194/1‑46 (MQ=255)

                                                                                    tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                            <  2:461672/139‑1 (MQ=255)

                                                                                    tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCAATATGCGGATg                            >  1:325344/1‑139 (MQ=255)

                                                                                     gACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGc                           >  1:158321/1‑139 (MQ=255)

                                                                                      aCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                          >  2:499428/1‑139 (MQ=255)

                                                                                         gTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAtt                       <  2:297520/139‑1 (MQ=255)

                                                                                                    catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                            >  2:240534/1‑123 (MQ=255)

                                                                                                    catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                            <  1:240534/123‑1 (MQ=255)

                                                                                                    catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                          <  1:720853/125‑1 (MQ=255)

                                                                                                    catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                          >  2:720853/1‑125 (MQ=255)

                                                                                                              gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCct  >  2:61262/1‑139 (MQ=18)

                                                                                                              gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCct  >  1:227140/1‑139 (MQ=18)

TCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCT  >  NC_000913/1467794‑1468042

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