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
A16 F48 I1 R1	61	131.2	4447032	99.1%	4407008	139.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,323,152	C→T	pseudogene (130/839 nt)	phnE ←	phosphonate ABC transporter membrane subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,323,152	0	C	T	100.0%	179.9 / NA	52	pseudogene (130/839 nt)	phnE	phosphonate ABC transporter membrane subunit
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (17/35); total (17/35)

TGACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGACCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGCCGGATAAGGTGCTTGCACCGCATCCGGCATC  >  NC_000913/4323017‑4323282

tGACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAac                                                                                                                                >  1:960411/1‑140 (MQ=255)

tGACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAac                                                                                                                                <  1:2129028/140‑1 (MQ=255)

ggaaggCCATTTCGGTGAGTTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCTATTTCCGCGCCCTGCCACGAGACGATCAac                                                                                                                                <  2:414111/136‑1 (MQ=255)

ggACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAac                                                                                                                                <  2:1724999/139‑1 (MQ=255)

ggACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAac                                                                                                                                <  2:1398333/139‑1 (MQ=255)

ggACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAac                                                                                                                                <  1:1869631/139‑1 (MQ=255)

   cGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACg                                                                                                                             <  2:2057599/140‑1 (MQ=255)

   cGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACg                                                                                                                             <  1:1940624/140‑1 (MQ=255)

   cGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACg                                                                                                                             <  1:1880774/140‑1 (MQ=255)

     gCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGc                                                                                                                           <  2:1869907/140‑1 (MQ=255)

      ccATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCg                                                                                                                          >  2:1932782/1‑140 (MQ=255)

      ccATTTCGGTGAGGTAACCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCg                                                                                                                          <  2:48746/140‑1 (MQ=255)

       cttttCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGACCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGa                                                                                                                         <  2:1575071/138‑1 (MQ=255)

       cATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGa                                                                                                                         <  2:2064307/140‑1 (MQ=255)

        aTTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGat                                                                                                                        >  2:1736403/1‑139 (MQ=255)

        aTTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAg                                                                                                                        <  1:824614/140‑1 (MQ=255)

               tGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACg                                                                                                                 >  1:850190/1‑140 (MQ=255)

                  ggTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGcc                                                                                                              <  2:1597970/140‑1 (MQ=255)

                  ggTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGcc                                                                                                              <  2:2215021/140‑1 (MQ=255)

                  gctAATCCTGCCACTGGCGGAAATCGGGAGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGcc                                                                                                              <  2:1315911/138‑1 (MQ=255)

                   gTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGccc                                                                                                             >  1:1761191/1‑140 (MQ=255)

                    tAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCa                                                                                                            <  1:1218226/140‑1 (MQ=255)

                           tccACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTTCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACAGCGAGTACAACCGCCCCGCTCAGa                                                                                                     >  2:280333/2‑140 (MQ=255)

                           gCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCt                                                                                                         >  1:1171457/1‑136 (MQ=255)

                           gCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCt                                                                                                         <  2:1171457/136‑1 (MQ=255)

                           gCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGa                                                                                                     >  1:1832969/1‑140 (MQ=255)

                            ccACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGaa                                                                                                    >  1:781637/1‑140 (MQ=255)

                             cACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAg                                                                                                   >  1:1647500/1‑140 (MQ=255)

                                   cTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGaa                                                                                             <  1:1175455/140‑1 (MQ=255)

                                          cgggcgggAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTg                                                                                      <  1:280333/140‑1 (MQ=255)

                                            ggcgggAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTgcg                                                                                    <  2:1832969/140‑1 (MQ=255)

                                            ggcgggAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTgcg                                                                                    >  1:1585191/1‑140 (MQ=255)

                                                         cggcggCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCg                                                                       <  1:424412/140‑1 (MQ=255)

                                                          ggcggcGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCga                                                                      <  2:960411/140‑1 (MQ=255)

                                                          ggcggcGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCga                                                                      <  1:1736403/140‑1 (MQ=255)

                                                                aaaCGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCAATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGGCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCgatggtga                                                                <  2:1856887/139‑1 (MQ=255)

                                                                           tGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATg                                                     >  1:276000/1‑140 (MQ=255)

                                                                                ccgccgTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTgg                                                >  1:92433/1‑140 (MQ=255)

                                                                                ccgccgTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTgg                                                >  1:2144408/1‑140 (MQ=255)

                                                                                  gccgTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCt                                              <  1:352981/140‑1 (MQ=255)

                                                                                  gccgTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCt                                              <  2:276000/140‑1 (MQ=255)

                                                                                    cgTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTcc                                            >  1:1114279/1‑140 (MQ=255)

                                                                                        tttGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGGGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTc                                        >  1:68862/1‑140 (MQ=255)

                                                                                           gATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGt                                     <  2:850190/140‑1 (MQ=255)

                                                                                             acAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAg                                   <  2:1761191/139‑1 (MQ=255)

                                                                                               aGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGc                                 <  1:1420832/140‑1 (MQ=255)

                                                                                               aGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGc                                 <  2:510295/140‑1 (MQ=255)

                                                                                               aGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGc                                 <  1:854794/140‑1 (MQ=255)

                                                                                                gCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGcc                                >  1:2105126/1‑140 (MQ=255)

                                                                                                           gCCATTTCCGCGCCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGCCGGATAAGGTGc                     >  1:1202404/1‑140 (MQ=255)

                                                                                                                     cgcCCTGCCACGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGCCGGATAAGGTGCTTGCACCGCa           <  2:2105126/140‑1 (MQ=255)

                                                                                                                              aCGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGCCGGATAAGGTGCTTGCACCGCATCCGGCATc  <  2:2144408/140‑1 (MQ=255)

                                                                                                                              aCGAGACGATCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGCCGGATAAGGTGCTTGCACCGCATCCGGCATc  <  2:781637/140‑1 (MQ=255)

TGACGGCCATTTCGGTGAGGTAATCCTGCCACTGGCTGAAATCGGGCGGGAAGAAGTCGGCGGCGAACGTCGCCATGTTGCCGCCGTCTTTGATCAGCGTAAGCGGGGCCATTTCCGCGCCCTGCCACGAGACGACCAACACGGCGAGTACAACGGCCCAGCTCAGAAGCGAGAACCAGCTGCGCTTGGGTGGGGCGATGGTGATGGTTTGCATGTTTGGCTCCGGTCTGTAGGCCGGATAAGGTGCTTGCACCGCATCCGGCATC  >  NC_000913/4323017‑4323282

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A