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	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,827,351	G→A	320 (TAG→TAA)	srlE →	glucitol/sorbitol‑specific enzyme IIB component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,827,351	0	G	A	100.0%	164.7 / NA	51	320 (TAG→TAA)	srlE	glucitol/sorbitol‑specific enzyme IIB component of PTS
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/28); total (23/28)

GCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCG  >  NC_000913/2827228‑2827470

gCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAATGCTGAAACATGAc                                                                                                          <  1:921805/139‑1 (MQ=255)

gCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGAc                                                                                                          <  1:43412/139‑1 (MQ=255)

              gTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGa                                                                                            >  2:567130/1‑139 (MQ=255)

               tCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGAc                                                                                                          <  1:617301/124‑1 (MQ=255)

               tCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGAc                                                                                                          >  2:617301/1‑124 (MQ=255)

               tCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGac                                                                                           >  1:53316/1‑139 (MQ=255)

                        ggTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGc                                                                                                                     <  1:616670/104‑1 (MQ=255)

                        ggTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGc                                                                                                                     >  2:616670/1‑104 (MQ=255)

                        ggTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCAc                                                                                  <  1:142410/139‑1 (MQ=255)

                          ttCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCAccc                                                                                >  2:17806/1‑139 (MQ=255)

                               gTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATc                                                                           <  1:383201/139‑1 (MQ=255)

                                  ggTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGgc                                                                        >  2:753484/1‑139 (MQ=255)

                                       cccTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAg                                                                   <  2:53316/139‑1 (MQ=255)

                                           tCTGTACTGGTGAGCCTCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGAc                                                                                                          <  1:16923/96‑1 (MQ=255)

                                           tCTGTACTGGTGAGCCTCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGAc                                                                                                          >  2:16923/1‑96 (MQ=255)

                                             tGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCAt                                                             >  2:521173/1‑139 (MQ=255)

                                              gTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCAtt                                                            >  1:52888/1‑139 (MQ=255)

                                              gTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGAACACCATCGCCCGTAGCGGCGCGAGTGCCAtt                                                            <  1:567130/139‑1 (MQ=255)

                                               tACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTg                                                           >  1:441088/1‑139 (MQ=255)

                                                aCTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGa                                                          <  2:441088/139‑1 (MQ=255)

                                                   ggTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCg                                                                                                        >  2:451532/1‑90 (MQ=255)

                                                   ggTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCg                                                                                                        <  1:451532/90‑1 (MQ=255)

                                                    gTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGa                                                                                            >  2:205304/1‑101 (MQ=255)

                                                    gTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGa                                                                                            <  1:205304/101‑1 (MQ=255)

                                                    gTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGgcgc                                                                      <  2:1175990/123‑1 (MQ=255)

                                                    gTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGgcgc                                                                      >  1:1175990/1‑123 (MQ=255)

                                                      gAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCt                                                    <  1:521173/139‑1 (MQ=255)

                                                       aGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTc                                                   >  2:1014534/1‑139 (MQ=255)

                                                         ccGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGaccacc                                                                                       <  1:884737/101‑1 (MQ=255)

                                                         ccGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGaccacc                                                                                       >  2:884737/1‑101 (MQ=255)

                                                                 tAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGa                                         <  1:753484/139‑1 (MQ=255)

                                                                 tAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGa                                         <  1:17806/139‑1 (MQ=255)

                                                                       gcgcgcCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTg                                                                                                                   >  1:369832/1‑59 (MQ=255)

                                                                       gcgcgcCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTg                                                                                                                   <  2:369832/59‑1 (MQ=255)

                                                                                       gATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGtt                                                                                                      <  1:496262/56‑1 (MQ=255)

                                                                                       gATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGtt                                                                                                      >  2:496262/1‑56 (MQ=255)

                                                                                           gCCTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGgcgcg               >  1:249847/1‑139 (MQ=255)

                                                                                             cTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGaccacc                                                                                       >  1:516971/1‑65 (MQ=255)

                                                                                             cTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGaccacc                                                                                       <  2:516971/65‑1 (MQ=255)

                                                                                             cTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAgg                   >  2:458729/1‑133 (MQ=255)

                                                                                             cTGGTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAgg                   <  1:458729/133‑1 (MQ=255)

                                                                                                gTTTGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGc          <  1:469233/139‑1 (MQ=255)

                                                                                                 tttGTCTCCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCg         <  2:249847/139‑1 (MQ=255)

                                                                                                     tctcCGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGAcc     <  1:1014534/139‑1 (MQ=255)

                                                                                                        ccGGTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCTGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCg  <  1:837980/139‑1 (MQ=255)

                                                                                                          ggTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGa                                                          >  1:59308/1‑81 (MQ=255)

                                                                                                          ggTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGa                                                          <  2:59308/81‑1 (MQ=255)

                                                                                                          ggTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCt                                                    >  2:18360/1‑87 (MQ=255)

                                                                                                          ggTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCt                                                    <  1:18360/87‑1 (MQ=255)

                                                                                                           gTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGc          <  2:1086659/128‑1 (MQ=255)

                                                                                                           gTTTTATCTATCAATAAAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGc          >  1:1086659/1‑128 (MQ=255)

GCTGGCGGAAGCCCGTCAGGACACGGTTCGCGTCGGTGTCCCTTCTGTACTGGTGAGCCGCTTTTTAACCGGCGCGCCGACTGTACTGATCGCCTGGTTTGTCTCCGGTTTTATCTATCAATAGAGGCTGAAACATGACCGTTATTTATCAGACCACCATCACCCGTATCGGCGCGAGTGCCATTGACGCCCTCAGTGACCAGATGCTCATCACCTTTCGTGAAGGCGCGCCTGCGGACCTCG  >  NC_000913/2827228‑2827470

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A