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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,392,890	G→A	300 (TAG→TAA)	pgrR →	murein peptide degradation regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,392,890	0	G	A	100.0%	140.7 / NA	44	300 (TAG→TAA)	pgrR	murein peptide degradation regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/21); total (23/21)

CCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAGCACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAC  >  NC_000913/1392798‑1393021

cccGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCtt                                                                                                 >  1:1203271/1‑129 (MQ=255)

cccGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCtt                                                                                                 <  2:1203271/129‑1 (MQ=255)

               tACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttctt                                                                                                      >  2:644045/1‑109 (MQ=255)

               tACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttctt                                                                                                      <  1:644045/109‑1 (MQ=255)

               tACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        >  1:411937/1‑107 (MQ=255)

               tACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        <  2:411937/107‑1 (MQ=255)

                         acCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAt                                                              >  1:113496/1‑139 (MQ=255)

                           cGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTATAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTAGGTCAttt                                                            >  1:800011/1‑139 (MQ=255)

                              cGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACAttaatttaa                                                                                                           <  2:1022389/89‑1 (MQ=255)

                              cGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACAttaatttaa                                                                                                           >  1:1022389/1‑89 (MQ=255)

                              cGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         >  1:1089120/1‑139 (MQ=255)

                                aCATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTAt                                                       <  2:113496/139‑1 (MQ=255)

                                        gCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         >  2:126926/1‑129 (MQ=255)

                                        gCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         <  1:126926/129‑1 (MQ=255)

                                                       tatttatAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATg                                <  2:1153111/139‑1 (MQ=255)

                                                           tataGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGt                                                                                            <  2:330555/75‑1 (MQ=255)

                                                           tataGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGt                                                                                            >  1:330555/1‑75 (MQ=255)

                                                            atagatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACAt                                                                                                                   <  1:1187605/51‑1 (MQ=255)

                                                            atagatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACAt                                                                                                                   >  2:1187605/1‑51 (MQ=255)

                                                             tagatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACa                                             <  1:631740/120‑1 (MQ=255)

                                                             tagatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACa                                             >  2:631740/1‑120 (MQ=255)

                                                               gatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTAttct                                                    >  2:1264770/1‑111 (MQ=255)

                                                               gatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTAttct                                                    <  1:1264770/111‑1 (MQ=255)

                                                                 tagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATg                                <  2:1096080/129‑1 (MQ=255)

                                                                 tagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATg                                >  1:1096080/1‑129 (MQ=255)

                                                                   ggCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttctt                                                                                                      >  1:792473/1‑57 (MQ=255)

                                                                   ggCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttctt                                                                                                      <  2:792473/57‑1 (MQ=255)

                                                                   ggCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAg                                                                                    >  1:889519/1‑75 (MQ=255)

                                                                   ggCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATa                    >  1:689024/1‑139 (MQ=255)

                                                                   ggCTGAAGTATAAAGCTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAg                                                                                    <  2:889519/75‑1 (MQ=255)

                                                                    gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCtt                                                                                                 >  2:386547/1‑61 (MQ=255)

                                                                    gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCtt                                                                                                 <  1:386547/61‑1 (MQ=255)

                                                                    gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGt                                                                                   <  1:396129/75‑1 (MQ=255)

                                                                    gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGt                                                                                   >  2:396129/1‑75 (MQ=255)

                                                                    gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGc                                        >  1:403832/1‑118 (MQ=255)

                                                                    gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGc                                        <  2:403832/118‑1 (MQ=255)

                                                                           tataAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAAc            <  2:689024/139‑1 (MQ=255)

                                                                              aaaGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         <  1:533657/91‑1 (MQ=255)

                                                                              aaaGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         >  2:533657/1‑91 (MQ=255)

                                                                                     cTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        <  2:265687/37‑1 (MQ=255)

                                                                                     cTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        >  1:265687/1‑37 (MQ=255)

                                                                                     cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTaa                                                                                               >  2:1218476/1‑46 (MQ=255)

                                                                                     cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTaa                                                                                               <  1:1218476/46‑1 (MQ=255)

                                                                                     cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAc  >  1:1230867/1‑139 (MQ=255)

CCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAGCACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAC  >  NC_000913/1392798‑1393021

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A