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
A4 F50 I1 R1	14	47.9	1492993	99.0%	1478063	150.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,913,536	C→T	W39* (TGG→TAG)	relA ←	(p)ppGpp synthetase I/GTP pyrophosphokinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,913,536	0	C	T	100.0%	195.1 / NA	50	W39* (TGG→TAG)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (23/27); total (23/27)

TTGGCATCCGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCT  >  NC_000913/2913389‑2913677

ttGGCATCCGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAgg                                                                                                                                            >  2:487451/1‑151 (MQ=255)

 tGGCATCCGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAgg                                                                                                                                            <  1:380909/150‑1 (MQ=255)

 tGGCATCCGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGt                                                                                                                                           >  1:522737/1‑151 (MQ=255)

     aTCCGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCg                                                                                                                                       <  2:138967/151‑1 (MQ=255)

        cGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCt                                                                                                                                    <  2:253126/151‑1 (MQ=255)

           cAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAg                                                                                                                                 <  1:495663/151‑1 (MQ=255)

             gagGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCa                                                                                                                               <  2:629180/151‑1 (MQ=255)

                   aaaGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTcaca                                                                                                                         <  1:544539/151‑1 (MQ=255)

                           gccgccCGCAGCGTGTCAATGTCCATACCTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTct                                                                                                                 <  1:617309/151‑1 (MQ=255)

                               cccgcAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTctggct                                                                                                             >  2:111390/1‑151 (MQ=255)

                                ccgcAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTctggctg                                                                                                            <  1:197386/151‑1 (MQ=255)

                                      cGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAAt                                                                                                       >  1:588234/1‑150 (MQ=255)

                                       gtgtCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATAc                                                                                                     <  2:726176/151‑1 (MQ=255)

                                           cAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAg                                                                                                 <  2:620158/151‑1 (MQ=255)

                                                tCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTg                                                                                            >  2:212159/1‑151 (MQ=255)

                                                 ccATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACtt                                                                                             <  1:2852/149‑1 (MQ=255)

                                                   aTACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCg                                                                                          >  1:559653/1‑150 (MQ=255)

                                                         aaTGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCAtt                                                                                   >  2:165736/1‑151 (MQ=255)

                                                         aaTGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCAt                                                                                    <  2:742365/150‑1 (MQ=255)

                                                                agagGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCgg                                                                            >  1:645641/1‑151 (MQ=255)

                                                                     aTCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCa                                                                        >  2:188651/1‑150 (MQ=255)

                                                                         ccaccaTCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTc                                                                   <  1:373283/151‑1 (MQ=255)

                                                                         ccaccaTCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTc                                                                   >  1:297671/1‑151 (MQ=255)

                                                                          caccaTCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCa                                                                  <  1:235270/151‑1 (MQ=255)

                                                                            ccaTCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCAc                                                                 <  1:384549/150‑1 (MQ=255)

                                                                                  cAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGcc                                                            <  1:571880/149‑1 (MQ=255)

                                                                                  cAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCt                                                           <  2:590719/150‑1 (MQ=255)

                                                                                  cAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGATAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                              <  2:604471/147‑1 (MQ=255)

                                                                                     caccacGCCACAATAACAGACTTGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAt                                                        <  2:413022/150‑1 (MQ=255)

                                                                                       ccacGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTg                                                      >  1:252124/1‑150 (MQ=255)

                                                                                       ccacGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTg                                                      <  2:303852/150‑1 (MQ=255)

                                                                                       ccacGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGa                                                     <  1:162165/151‑1 (MQ=255)

                                                                                        cacGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGat                                                    <  1:132116/151‑1 (MQ=255)

                                                                                         acGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGat                                                    >  2:109317/1‑150 (MQ=255)

                                                                                          cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGatat                                                  >  1:701295/1‑151 (MQ=255)

                                                                                           gCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATAtg                                                 <  2:632792/151‑1 (MQ=255)

                                                                                            ccACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATAtgt                                                <  1:145866/151‑1 (MQ=255)

                                                                                                aaTAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCAc                                            >  1:589614/1‑151 (MQ=255)

                                                                                                 aTAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCAct                                           <  2:538150/151‑1 (MQ=255)

                                                                                                          tGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGc                                  >  2:245132/1‑151 (MQ=255)

                                                                                                           ggCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCa                                 <  2:585697/151‑1 (MQ=255)

                                                                                                             cATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAAc                               <  1:38443/151‑1 (MQ=255)

                                                                                                              aTCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAAcc                              >  1:534397/1‑151 (MQ=255)

                                                                                                                    aTGCCCCTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTc                        >  2:300285/1‑151 (MQ=255)

                                                                                                                        cccTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCctct                    >  2:700423/1‑151 (MQ=255)

                                                                                                                          cTGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTcc                  >  1:483990/1‑151 (MQ=255)

                                                                                                                           tGCGTCTGTTGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCt                 >  2:148576/1‑151 (MQ=255)

                                                                                                                                    tGCAGACAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGAcc        >  2:148775/1‑151 (MQ=255)

                                                                                                                                         aCAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGAcc   >  2:408881/1‑151 (MQ=255)

                                                                                                                                          cAATACGCCTAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCt  >  1:590617/1‑151 (MQ=255)

TTGGCATCCGCCAGAGGGAAAAGCAGCGCCGCCCGCAGCGTGTCAATGTCCATACTTAATGTCGAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCT  >  NC_000913/2913389‑2913677

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A