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	1,421,933	T→C	V272A (GTC→GCC)	ydaU →	Rac prophage, conserved protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,421,933	0	T	C	100.0%	113.3 / NA	33	V272A (GTC→GCC)	ydaU	Rac prophage, conserved protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/17); total (16/17)

CGGGAGCTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGTCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCAT  >  NC_000913/1421797‑1422055

cGGGAGCTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                          <  1:917001/139‑1 (MQ=255)

       tGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTAcc                                                                                                                   >  2:430683/1‑139 (MQ=255)

        ggAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCg                                                                                                                  >  1:1005612/1‑139 (MQ=255)

                   gCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                          >  1:459574/1‑120 (MQ=255)

                       gcagGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCg                                                                                                   <  1:1020921/139‑1 (MQ=255)

                                 tCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                         <  2:1005612/139‑1 (MQ=255)

                                 tCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCa                                                                                         <  1:447274/139‑1 (MQ=255)

                                               gATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGAcc                                                                           <  1:212022/139‑1 (MQ=255)

                                               gATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGAcc                                                                           >  2:861859/1‑139 (MQ=255)

                                               gATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGAcc                                                                           >  1:630831/1‑139 (MQ=255)

                                                 ttCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCAt                                                                         <  1:861859/139‑1 (MQ=255)

                                                  tCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATg                                                                        >  2:854450/1‑139 (MQ=255)

                                                  tCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATg                                                                        >  2:913807/1‑139 (MQ=255)

                                                  tCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATg                                                                        >  1:381523/1‑139 (MQ=255)

                                                             tCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGc                                                             <  2:630831/139‑1 (MQ=255)

                                                                ccAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGcct                                                                                                                          <  2:138350/75‑1 (MQ=255)

                                                                     gAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCg                                                     <  1:854450/139‑1 (MQ=255)

                                                                     gAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCg                                                     <  1:913807/139‑1 (MQ=255)

                                                                     gAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCg                                                     <  1:430683/139‑1 (MQ=255)

                                                                           cAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGaa                                                                      <  1:778463/116‑1 (MQ=255)

                                                                           cAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGaa                                                                      >  2:778463/1‑116 (MQ=255)

                                                                             gggCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGATACTCTGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGCGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCtt                                             >  2:815151/1‑139 (MQ=255)

                                                                                cTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAg                                                                                               >  2:318425/1‑86 (MQ=255)

                                                                                cTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAg                                                                                               <  1:318425/86‑1 (MQ=255)

                                                                                                     tCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTGCCGGATAGTGCGATCCCGCCAGGCtt                                                                                           >  2:795526/1‑69 (MQ=255)

                                                                                                     tCGACCTGAGACGTTACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCtt                                                                                           <  1:795526/69‑1 (MQ=255)

                                                                                                                   tACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCtt                                                                                           >  2:874450/1‑55 (MQ=255)

                                                                                                                   tACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCtt                                                                                           <  1:874450/55‑1 (MQ=255)

                                                                                                                   tACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGa                                                                             >  2:650526/1‑69 (MQ=255)

                                                                                                                   tACTCCGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGa                                                                             <  1:650526/69‑1 (MQ=255)

                                                                                                                       ccGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCa   <  2:381523/139‑1 (MQ=255)

                                                                                                                        cGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGa                                                    >  2:915409/1‑89 (MQ=255)

                                                                                                                        cGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGa                                                    <  1:915409/89‑1 (MQ=255)

                                                                                                                        cGACAGGTTAACACCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCAt  >  1:459183/1‑139 (MQ=255)

                                                                                                                                  acacCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGc                         <  2:404919/106‑1 (MQ=255)

                                                                                                                                  acacCGCCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGc                         >  1:404919/1‑106 (MQ=255)

CGGGAGCTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCGCCAATGAATACCAGGGCTTGTTCGCGCCGAAAGGTGTTCGACCTGAGACGTTACTCCGACAGGTTAACACCGTCTCGTTACCGGATAGTGCGATCCCGCCAGGCTTCAGGGGGTAACTGACCATGAAAAATATTGCGACAGGCGATGTTCTTGAACGTATCCGCAGACTGGCCCCGTCACATGTAACCGCGCCAT  >  NC_000913/1421797‑1422055

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