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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	361,924	G→A	intergenic (‑64/+2)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	361,924	0	G	A	100.0%	183.8 / NA	57	intergenic (‑64/+2)	lacA/lacY	thiogalactoside acetyltransferase/lactose permease
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (34/23); total (34/23)

CGGTAAGCCTTCGCACATATCGGTAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTGCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATGCTTT  >  NC_000913/361792‑362059

cGGTAAGCCTTCGCACATATCGGTAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAg                                                                                                                                   <  2:688364/139‑1 (MQ=255)

cGGTAAGCCTTCGCACATATCGGTAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAg                                                                                                                                   <  1:710089/139‑1 (MQ=255)

 ggTAAGCCTTCGCACATATCGGTAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGc                                                                                                                                  >  1:977981/1‑139 (MQ=255)

   tAAGCCTTCGCACATATCGGTAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGa                                                                                                                                <  2:463738/139‑1 (MQ=255)

                       tAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACgc                                                                                                            <  1:158100/139‑1 (MQ=255)

                          aTAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACgcagc                                                                                                         >  2:161321/1‑139 (MQ=255)

                          aTAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACgcagc                                                                                                         >  2:153368/1‑139 (MQ=255)

                            aGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGcagcag                                                                                                       >  1:765733/1‑139 (MQ=255)

                            aGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGcagcag                                                                                                       >  1:272262/1‑139 (MQ=255)

                              cTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTgacg                                                                                                                >  1:848101/1‑128 (MQ=255)

                              cTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTgacg                                                                                                                <  2:848101/128‑1 (MQ=255)

                              cTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAggg                                                                                                     >  1:804767/1‑139 (MQ=255)

                                 gCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGaaa                                                                                                  >  1:583752/1‑139 (MQ=255)

                                           aTTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCgggccggg                                                                                        >  1:331970/1‑139 (MQ=255)

                                            ttCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCgggccgggg                                                                                       <  2:15202/139‑1 (MQ=255)

                                               tttCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCgggccggggccg                                                                                    <  2:395279/139‑1 (MQ=255)

                                                ttCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTgacga                                                                                                               <  2:588498/111‑1 (MQ=255)

                                                ttCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTgacga                                                                                                               >  1:588498/1‑111 (MQ=255)

                                                 tCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCt                                                                                  >  1:17390/1‑139 (MQ=255)

                                                 tCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCt                                                                                  >  2:270444/1‑139 (MQ=255)

                                                     tCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGc                                                                              >  2:375768/1‑139 (MQ=255)

                                                             aTGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAacac                                                                      <  1:159123/139‑1 (MQ=255)

                                                             aTGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAacac                                                                      <  2:765733/139‑1 (MQ=255)

                                                                     tGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTa                                                              >  1:957219/1‑139 (MQ=255)

                                                                     tGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTa                                                              >  1:577030/1‑139 (MQ=255)

                                                                          tCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACgcag                                                                                                          <  2:938877/90‑1 (MQ=255)

                                                                          tCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACgcag                                                                                                          >  1:938877/1‑90 (MQ=255)

                                                                          tCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTg                                                         <  2:692864/139‑1 (MQ=255)

                                                                          tCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTg                                                         >  1:913180/1‑139 (MQ=255)

                                                                          tCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTg                                                         >  1:188900/1‑139 (MQ=255)

                                                                                 gTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCa                                                  >  2:396356/1‑139 (MQ=255)

                                                                                        tatGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGccac                                           >  1:727264/1‑139 (MQ=255)

                                                                                         atGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGccacc                                          <  1:548175/139‑1 (MQ=255)

                                                                                          tGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGccacca                                         >  2:49941/1‑139 (MQ=255)

                                                                                            ttGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGa                                                                          >  2:423927/1‑104 (MQ=255)

                                                                                            ttGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGa                                                                          <  1:423927/104‑1 (MQ=255)

                                                                                            ttGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGa                                       >  1:937151/1‑139 (MQ=255)

                                                                                             tGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAc                                      <  1:17049/139‑1 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTgacga                                                                                                               <  1:656763/64‑1 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTgacga                                                                                                               >  2:656763/1‑64 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAg                                                                                                 >  1:905782/1‑78 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAg                                                                                                 <  2:905782/78‑1 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAccc                                    >  2:1012026/1‑139 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAccc                                    >  2:264391/1‑139 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAccc                                    >  1:916544/1‑139 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAccc                                    >  2:824419/1‑139 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAccc                                    >  1:144361/1‑139 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAcc                                     >  2:384405/1‑138 (MQ=255)

                                                                                               gTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGAcc                                     <  1:384405/138‑1 (MQ=255)

                                                                                                 cGGATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAg                                  >  1:728531/1‑139 (MQ=255)

                                                                                                   gATAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCa                                <  2:728531/139‑1 (MQ=255)

                                                                                                    aTAAGGCGCTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCAc                               >  2:149122/1‑139 (MQ=255)

                                                                                                         gcgcTCGCGCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGAt                          >  2:341623/1‑139 (MQ=255)

                                                                                                            cTCGCGACGCTTCCGACATTGATTACTTAAGCCAGGTCCTTCACCTGACGACGCAGTAGGGAAAGCGGGACGGGGCCGGTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCCCCACCAGAACCAGCACCAGATCAg                       <  2:384842/139‑1 (MQ=255)

                                                                                                              cgcgCCGCATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAgcg                     <  2:870107/139‑1 (MQ=255)

                                                                                                                   cgcATCCGACATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTg                <  1:49941/139‑1 (MQ=255)

                                                                                                                           aCATTGATTACTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGa        <  2:17390/139‑1 (MQ=255)

                                                                                                                             attgattaCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATg      <  2:804767/139‑1 (MQ=255)

                                                                                                                             attgattaCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATg      <  1:270444/139‑1 (MQ=255)

                                                                                                                               tgattaCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATGCt    <  2:577030/139‑1 (MQ=255)

                                                                                                                               tgattaCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATGCt    <  1:824419/139‑1 (MQ=255)

                                                                                                                                 attaCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATGCttt  >  1:652683/1‑139 (MQ=255)

CGGTAAGCCTTCGCACATATCGGTAAATAGCTTGCCTGCTCTTATTCTTTCGGTCATTGGCATGTTCAATGCGATCACTCCGTTATGATATGTTGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTGATTGCTTAAGCGACTTCATTCACCTGACGACGCAGCAGGGAAAGCGGGCCGGGGCCGCTAAGCGTGAACACGGAAATTAAGGTGAAGCCCAGCGCCACCAGACCCAGCACCAGATAAGCGCCCTGGAAACCGATGCTTT  >  NC_000913/361792‑362059

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