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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,531,605	T→C	T279A (ACA→GCA)	yhgE ←	DUF4153 family putative inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,531,605	0	T	C	100.0%	137.6 / NA	39	T279A (ACA→GCA)	yhgE	DUF4153 family putative inner membrane protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (18/21); total (18/21)

CCGCCAGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGTCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGC  >  NC_000913/3531470‑3531732

ccGCCAGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCa                                                                                                                              <  1:1087325/139‑1 (MQ=255)

    cAGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGa                                                                                                                          >  1:1094389/1‑139 (MQ=255)

              tGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCtt                                                                                                                >  1:791895/1‑139 (MQ=255)

                      gTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGa                                                                                                        >  1:663253/1‑139 (MQ=255)

                         gACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACACAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcg                                                                                                     <  1:1005803/139‑1 (MQ=255)

                          aCAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGACGACGAACACATACTGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATcgc                                                                                                    <  1:503588/139‑1 (MQ=255)

                              tCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCg                                                                                                          <  2:761220/129‑1 (MQ=255)

                              tCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCg                                                                                                          >  1:761220/1‑129 (MQ=255)

                              tCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGAc                                                                                                >  2:264035/1‑139 (MQ=255)

                              tCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGAc                                                                                                >  2:1575299/1‑139 (MQ=255)

                                 aGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAAt                                                                                             <  2:941778/139‑1 (MQ=255)

                                   ccGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAg                                                                                           <  2:774365/139‑1 (MQ=255)

                                   ccGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAg                                                                                           <  1:264778/139‑1 (MQ=255)

                                      tACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCa                                                                                        <  2:576535/139‑1 (MQ=255)

                                             cGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATc                                                                                                      <  1:1602538/118‑1 (MQ=255)

                                             cGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATc                                                                                                      >  2:1602538/1‑118 (MQ=255)

                                                                        cgacgaACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATc                                                                                                      <  1:1588371/91‑1 (MQ=255)

                                                                        cgacgaACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATc                                                                                                      >  2:1588371/1‑91 (MQ=255)

                                                                                   tACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCcggcgg                                           <  2:791895/139‑1 (MQ=255)

                                                                                   tACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCcggcgg                                           <  2:663253/139‑1 (MQ=255)

                                                                                      aGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGAAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATAAATTGCAAAAAGGCCACCGTCAACAGCAACCcggcggcgg                                        >  1:1227472/1‑139 (MQ=255)

                                                                                        cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACaa                                                                                              <  2:972273/83‑1 (MQ=255)

                                                                                        cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACaa                                                                                              >  1:972273/1‑83 (MQ=255)

                                                                                        cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAg                                                                                   <  1:1302304/94‑1 (MQ=255)

                                                                                        cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAg                                                                                   >  2:1302304/1‑94 (MQ=255)

                                                                                        cGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGgag                                      >  2:391702/1‑139 (MQ=255)

                                                                                          gAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATa                                                                                            <  1:696222/83‑1 (MQ=255)

                                                                                          gAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATa                                                                                            >  2:696222/1‑83 (MQ=255)

                                                                                          gAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGAt                                    >  1:834745/1‑139 (MQ=255)

                                                                                            gCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAg                                                                                           <  1:768510/82‑1 (MQ=255)

                                                                                            gCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAg                                                                                           >  2:768510/1‑82 (MQ=255)

                                                                                                    cAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCAtt                                                                                      >  1:1592527/1‑79 (MQ=255)

                                                                                                    cAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCAtt                                                                                      <  2:1592527/79‑1 (MQ=255)

                                                                                                                 aTCAGGCAACGCAACGGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGc             <  1:264035/139‑1 (MQ=255)

                                                                                                                            caacgGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGc  <  1:1575299/139‑1 (MQ=255)

                                                                                                                               cgGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCa                                                                <  1:800842/74‑1 (MQ=255)

                                                                                                                               cgGCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCa                                                                >  2:800842/1‑74 (MQ=255)

                                                                                                                                ggCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGcc                                                                 <  2:515626/72‑1 (MQ=255)

                                                                                                                                ggCCCTGCCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGcc                                                                 >  1:515626/1‑72 (MQ=255)

CCGCCAGCACGCCCTGCAAGCGGTCGACAGTCCAGCCGTACTGAGCGACCCGCAGCCATAACGCCCAGGCGGCGACGAACACATACAGCGGAGCAACCAGCAAAGCGGTTTTAATCAGGCAACGCAACGGCCCTGTCCAGGGAAGTGACGCTTTTTGCGGATCGCGGACAATAGCCATTAAGATCAATTGCAAAAAGGCCAGCGTCAACAGCAACCCGGCGGCGGAGATGTGGCGAGAAATCGCGCTCAGGCCCGTAAACGGC  >  NC_000913/3531470‑3531732

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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