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 F50 I2 R1	139	64.5	2139856	92.7%	1983646	149.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,585,493	T→C	Y444C (TAC→TGC)	ggt ←	gamma‑glutamyltranspeptidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,585,493	0	T	C	98.2%	186.6 / NA	55	Y444C (TAC→TGC)	ggt	gamma‑glutamyltranspeptidase
Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (22/31); total (22/33)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

GCAGCACTGTAGTGATGATCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGTAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCTTTATCCACC  >  NC_000913/3585347‑3585636

gcagcaCTGTAGTGATGATCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAAc                                                                                                                                             >  2:161715/1‑151 (MQ=255)

   gcaCTGTAGTGATGATCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGtt                                                                                                                                          <  2:719186/151‑1 (MQ=255)

        gTAGTGATGATCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGt                                                                                                                                      <  2:707821/150‑1 (MQ=255)

            tgatgaTCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGcc                                                                                                                                 >  1:316883/1‑151 (MQ=255)

             gatgatCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGccc                                                                                                                                <  1:498936/151‑1 (MQ=255)

              atgctCCTGCTACCGCATGGGCTACCGGTAACCAGCCAGGTTTTACCGCCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACAAGCCCGCAAACGTTCGGTACGCCCg                                                                                                                               >  2:1009337/1‑151 (MQ=255)

              atgatCCGGCTACCCCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCTGTACGcca                                                                                                                                <  2:621659/150‑2 (MQ=255)

                gatCCGGCTACCGCCTGGGCTACCGGTCACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGAGTTGGCATCACAGCCCACCAGCCCGCAAACGTTCGGTACGCCCgg                                                                                                                              >  2:849904/1‑150 (MQ=255)

                   ccGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGttt                                                                                                                           <  2:1037639/150‑1 (MQ=255)

                      gCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCg                                                                                                                       <  2:324090/151‑1 (MQ=255)

                          ccGCGTGGGCTTCCGGTAACCAGCCAGGTTTTACCTTCTTTCACCACAATGGTCGGCGACATCGTCGACTTCGGGCGTTTCTTCGGCCGGCCGGCGTTGGCATCACCGCCCACCAGCCCCCAAATGTTCGGTACGACCGGTTTGGCGgag                                                                                                                    <  2:741979/150‑1 (MQ=255)

                                gggCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAatca                                                                                                              <  2:1028302/150‑1 (MQ=255)

                                      ccGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCt                                                                                                       <  2:634719/151‑1 (MQ=255)

                                        ggTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTgg                                                                                                     <  1:22057/151‑1 (MQ=255)

                                            aCCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAACTCATCCATCTGGttat                                                                                                 <  1:214149/151‑1 (MQ=255)

                                                  cagGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCa                                                                                           <  1:829189/151‑1 (MQ=255)

                                                    ggTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGc                                                                                            >  1:610744/1‑148 (MQ=255)

                                                    ggTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGc                                                                                            >  1:627943/1‑148 (MQ=255)

                                                    ggTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGa                                                                                         <  1:159402/151‑1 (MQ=255)

                                                         tACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATAcc                                                                                    >  1:681453/1‑151 (MQ=255)

                                                         tACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATAc                                                                                     <  2:884288/150‑1 (MQ=255)

                                                          aCCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCg                                                                                   <  2:1058353/151‑1 (MQ=255)

                                                             gTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCCGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCCTCCATCTGGTTATTAAGCAGAATACCGctc                                                                                >  2:837729/1‑151 (MQ=255)

                                                                      cacaATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCcgcg                                                                       >  1:274054/1‑151 (MQ=255)

                                                                        caATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGAc                                                                     >  2:415325/1‑151 (MQ=255)

                                                                                ggagACATCGGAGACAGCGGGCGTGGGTGCGGCCCGAAGGCGCTGGTATCACCGAACACCAGCCAGTATACGTACGGGTCGCCCGGTTTGGCGGAGACATCATCCATCTGGTTATTAAGAAGAAGACCGCTCTCGCACGAGACaaggac                                                               <  2:234265/146‑5 (MQ=255)

                                                                                    aCATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGCAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTAcc                                                         >  2:584024/1‑151 (MQ=255)

                                                                                      aTCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGa                                                       <  1:861225/151‑1 (MQ=255)

                                                                                           cgacAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAggtg                                                  >  2:310799/1‑151 (MQ=255)

                                                                                             acAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAggtggt                                                <  1:519769/151‑1 (MQ=255)

                                                                                              cAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGgtggtg                                               <  1:832325/151‑1 (MQ=255)

                                                                                              cAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGgtggtg                                               <  1:686399/151‑1 (MQ=255)

                                                                                               aGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACGAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGgtgt                                              <  2:252282/151‑1 (MQ=255)

                                                                                               aGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGgtgt                                              >  1:114848/1‑151 (MQ=255)

                                                                                                gCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGtt                                             >  2:489006/1‑151 (MQ=255)

                                                                                                 cGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTc                                            >  1:192356/1‑151 (MQ=255)

                                                                                                  gggCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTc                                            >  1:4111/1‑150 (MQ=255)

                                                                                                  gggCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCa                                           <  1:174073/151‑1 (MQ=255)

                                                                                                     cGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGGGGTGTTCAGCg                                        >  1:963723/1‑151 (MQ=255)

                                                                                                        ttGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGta                                      <  2:536280/150‑1 (MQ=255)

                                                                                                          gTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAg                                   <  2:540989/151‑1 (MQ=255)

                                                                                                               gCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTcac                              <  1:163022/151‑1 (MQ=255)

                                                                                                                  cGACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTcaccgc                           <  1:105818/151‑1 (MQ=255)

                                                                                                                   gACGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTcaccgcc                          <  2:514136/151‑1 (MQ=255)

                                                                                                                    aCGGCGTTGGCATCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTcaccgcc                          >  2:33217/1‑150 (MQ=255)

                                                                                                                     cGGCGTTGTCATCACCGCCCACCAGCCCGAAAACATTCAGTAGGAACGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAACAAAAGCCCGCGCTCGAACACGACAATGCCAGTACCAATAGTTGTGGTCAGCGTATAGGAcaccgcca                         <  2:813777/150‑1 (MQ=255)

                                                                                                                      ggCGTTGGCTCCCCCGCCCCCCAGCCCCCAAACGTGCGGTACGCCCGTTTTGGCGTAGAAACCATCTTTCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGAAATTGCCCGTCCGGAGGGTGGTGTTCGGCTTATAGGTcaccgccac                        <  2:816603/150‑1 (MQ=255)

                                                                                                                                tCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGtt                                             <  2:994666/119‑1 (MQ=255)

                                                                                                                                tCACCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGtt                                             >  1:994718/1‑119 (MQ=255)

                                                                                                                                  aCCGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCt           <  1:458942/151‑1 (MQ=255)

                                                                                                                                   ccGCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCtt          <  1:737603/151‑1 (MQ=255)

                                                                                                                                     gCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCttt         >  1:286511/1‑150 (MQ=255)

                                                                                                                                     gCCCACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCttt         >  1:994350/1‑150 (MQ=255)

                                                                                                                                      cccACCAGCCCGCAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCTTTAt       <  1:191995/151‑1 (MQ=255)

                                                                                                                                            aGCCCGCAAACGCTCGGTACGCCCGGCTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCTTTATccacc  >  2:809225/1‑150 (MQ=255)

GCAGCACTGTAGTGATGATCCGGCTACCGCCTGGGCTACCGGTAACCAGCCAGGTTTTACCGTCTTTCACCACAATGGTCGGCGACATCGACGACAGCGGGCGTTTGTTCGGCCCGACGGCGTTGGCATCACCGCCCACCAGCCCGTAAACGTTCGGTACGCCCGGTTTGGCGGAGAAATCATCCATCTGGTTATTAAGCAGAATACCGCTCTCGCCCGCGACAATGCCCGTACCGAAGGTGGTGTTCAGCGTATAGGTCACCGCCACCGCGTTACCATCTTTATCCACC  >  NC_000913/3585347‑3585636

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 24 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A