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
A7 F28 I1 R1	148	57.0	1973990	96.6%	1906874	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,052,496	C→T	P289P (CCG→CCA)	yccM ←	putative 4Fe‑4S membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,052,496	0	C	T	98.1%	177.4 / ‑4.8	52	P289P (CCG→CCA)	yccM	putative 4Fe‑4S membrane protein
Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (24/27); total (25/27)
Fisher's exact test for biased strand distribution p-value = 4.81e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCCGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACCGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCCACAGTCGATACAACTTTCGGCATTGCGAC  >  NC_000913/1052362‑1052629

cccGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACa                                                                                                                                  <  1:365200/140‑1 (MQ=255)

 ccGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACTAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACCGGACAt                                                                                                                                 >  2:918895/1‑140 (MQ=255)

 ccGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACa                                                                                                                                  <  2:712000/139‑1 (MQ=255)

 ccGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACa                                                                                                                                  >  1:712000/1‑139 (MQ=255)

 ccGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACAt                                                                                                                                 >  1:262931/1‑140 (MQ=255)

   gCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGa                                                                                                                               >  1:305001/1‑140 (MQ=255)

    cATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGAc                                                                                                                              >  2:355597/1‑140 (MQ=255)

         aTTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTAc                                                                                                                         >  2:712601/1‑140 (MQ=255)

          ttGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACg                                                                                                                        <  1:483251/140‑1 (MQ=255)

           tGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTAc                                                                                                                         >  2:574862/1‑138 (MQ=255)

           tGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTAc                                                                                                                         <  1:574862/138‑1 (MQ=255)

             cGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCaa                                                                                                                     >  1:543040/1‑140 (MQ=255)

                  ccAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCAt                                                                                                                <  2:966710/140‑1 (MQ=255)

                  ccAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCAt                                                                                                                <  1:675562/140‑1 (MQ=255)

                            cAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTa                                                                                                      >  2:706782/1‑140 (MQ=255)

                             aaaCATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAg                                                                                                            <  2:523443/133‑1 (MQ=255)

                             aaaCATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAg                                                                                                            >  1:523443/1‑133 (MQ=255)

                              aaCATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACa                                                                                                    <  1:712601/140‑1 (MQ=255)

                                   aaTCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCa                                                                                               <  1:33931/140‑1 (MQ=255)

                                   aaTCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCa                                                                                               <  2:262931/140‑1 (MQ=255)

                                   aaTCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCa                                                                                               <  1:355597/140‑1 (MQ=255)

                                   aaTCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCa                                                                                               <  1:794563/140‑1 (MQ=255)

                                          aGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCg                                                                                        >  1:432824/1‑140 (MQ=255)

                                          aGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCg                                                                                        <  2:630310/140‑1 (MQ=255)

                                             aCCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTAc                                                                                     <  2:305001/140‑1 (MQ=255)

                                                      gTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTG‑GGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGaattaat                                                                           >  1:71334/1‑140 (MQ=255)

                                                           tAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTAt                                                                       <  2:543040/140‑1 (MQ=255)

                                                           tAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTAt                                                                       <  2:645779/140‑1 (MQ=255)

                                                            aaCCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATc                                                                      <  2:432824/140‑1 (MQ=255)

                                                               cagccagACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGAc                                                                   >  1:697426/1‑140 (MQ=255)

                                                                agccagACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGAcc                                                                  >  1:481035/1‑140 (MQ=255)

                                                                agccagACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGAcc                                                                  <  1:706782/140‑1 (MQ=255)

                                                                  ccagACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCgg                                                                >  1:755519/1‑140 (MQ=255)

                                                                  ccagACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCgg                                                                <  1:846330/140‑1 (MQ=255)

                                                                  ccagACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCgg                                                                >  2:290950/1‑140 (MQ=255)

                                                                        aaCGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCg                                                          <  2:481035/140‑1 (MQ=255)

                                                                         aCGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGa                                                                    >  1:856433/1‑129 (MQ=255)

                                                                         aCGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGa                                                                    <  2:856433/129‑1 (MQ=255)

                                                                          cGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTg                                                        >  1:674132/1‑140 (MQ=255)

                                                                             aaaGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATg                                                     <  2:27936/140‑1 (MQ=255)

                                                                                  cTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCaa                                                >  1:364231/1‑140 (MQ=255)

                                                                                  cTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCaa                                                >  1:334618/1‑140 (MQ=255)

                                                                                         aTTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTG‑GGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTgc                                        <  2:71334/140‑1 (MQ=255)

                                                                                          tttGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTgc                                        <  2:697426/140‑1 (MQ=255)

                                                                                           ttGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTgcg                                       >  2:493020/1‑140 (MQ=255)

                                                                                           ttGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTgcg                                       >  1:226540/1‑140 (MQ=255)

                                                                                                      ttttGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCcaca                            <  2:674132/140‑1 (MQ=255)

                                                                                                      ttttGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCcaca                            <  2:785313/140‑1 (MQ=255)

                                                                                                        ttGCAGTGAAAAGGTCAATGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCCACAGt                          <  2:148956/140‑1 (MQ=255)

                                                                                                                          tGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCCACAGTCGATACAACTTTCGGCAt        >  1:854945/1‑140 (MQ=255)

                                                                                                                          tGTTGAGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCCACAGTCGATACAACTTTCGGCAt        >  1:528895/1‑140 (MQ=255)

                                                                                                                               aGGCTACTGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCCACAGTCGATACAACTTTCGGCATTGcga   >  2:485985/1‑140 (MQ=255)

                                                                                                                                ggCTACTGGAAATGACTCTACGCAATTCATACACCCGGTACATTCCACTGTTCGTCCCTAAATTAATTTATCGACCGGGACCCGTGATGGGAAATTTTTTGCGCATTTGCCACATTCGATACAACTTTCGGCATTGcgac  <  2:226540/140‑1 (MQ=255)

CCCGCATACATTGCGTAACCAATCACCGCAAACATAATCCCCAGAACCAGTAGCGTCATTAACCAGCCAGACAACGCAAAGGCTTTTTTATTTGCCGCAGGTTTTTGCAGTGAAAAGGTCAATGTTGAGGCTACCGGACATGACTCTACGCAAGTCATACAGCCGGTACATTCCACTGTTCGTACCTGAATTAATTTATCGACCGGGATCCGTGATGGGCAATTTTTTGCGCATTTGCCACAGTCGATACAACTTTCGGCATTGCGAC  >  NC_000913/1052362‑1052629

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A