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 F1 I2 R1	77	34.8	1608548	95.0%	1528120	114.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,769,899	A→G	T276A (ACC→GCC)	ydiK →	UPF0118 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,769,899	0	A	G	91.1%	141.3 / 3.0	45	T276A (ACC→GCC)	ydiK	UPF0118 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base A (2/2); new base G (19/22); total (21/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.55e-01

CCTCGCCGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCACCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGAT  >  NC_000913/1769769‑1770032

ccTCGCCGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGa                                                                                                                               <  2:344341/139‑1 (MQ=255)

  tCGCCGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTTCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAAc                                                                                                                             <  1:473087/139‑1 (MQ=255)

  tCGCCGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAAc                                                                                                                             <  2:426875/139‑1 (MQ=255)

    gCCGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACgg                                                                                                                           <  1:113912/139‑1 (MQ=255)

      cGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTa                                                                                                                         <  2:77053/139‑1 (MQ=255)

             ggCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAg                                                                                                                  >  2:57674/1‑139 (MQ=255)

                        tGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGTCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGgt                                                                                                       >  2:539250/1‑139 (MQ=255)

                        tGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACgg                                                                                                                           <  1:62646/119‑1 (MQ=255)

                        tGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACgg                                                                                                                           >  2:62646/1‑119 (MQ=255)

                        tGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGgt                                                                                                       <  1:654926/139‑1 (MQ=255)

                                tGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTgg                                                                                               >  2:445308/1‑139 (MQ=255)

                                  cTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACgg                                                                                                                           >  1:379861/1‑109 (MQ=255)

                                  cTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACgg                                                                                                                           <  2:379861/109‑1 (MQ=255)

                                  cTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCACCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCa                                                                                             >  1:608548/1‑139 (MQ=255)

                                        gtgtTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTgg                                                                                       >  1:24211/1‑139 (MQ=255)

                                         tgtTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCACCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGa                                                                                      <  2:608548/139‑1 (MQ=255)

                                           ttAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATa                                                                                    >  2:656907/1‑139 (MQ=255)

                                            tAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGa                                                                                                                               <  2:114990/95‑1 (MQ=255)

                                            tAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGa                                                                                                                               >  1:114990/1‑95 (MQ=255)

                                                     tctcCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCg                                                                          >  1:236809/1‑139 (MQ=255)

                                                     tctcCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCg                                                                          >  2:389735/1‑139 (MQ=255)

                                                     tctcCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCACCTGGGGa                                                                                                                               >  1:116344/1‑86 (MQ=255)

                                                     tctcCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCACCTGGGGa                                                                                                                               <  2:116344/86‑1 (MQ=255)

                                                       tcCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGcc                                                                        <  1:57674/139‑1 (MQ=255)

                                                       tcCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGcc                                                                        <  1:445308/139‑1 (MQ=255)

                                                       tcCTGCCTTGTCCAGCGTGGCCCGTGGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGGCTGCGAAACGGTATTGGTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGcc                                                                        <  1:242938/139‑1 (MQ=255)

                                                                 tCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAAt                                                              >  1:713911/1‑139 (MQ=255)

                                                                     gCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGc                                                          <  1:175815/139‑1 (MQ=255)

                                                                      cTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTgggg                                                                                                                                <  1:415087/68‑1 (MQ=255)

                                                                      cTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTgggg                                                                                                                                >  2:415087/1‑68 (MQ=255)

                                                                      cTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACg                                                                                           >  2:328542/1‑105 (MQ=255)

                                                                      cTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACg                                                                                           <  1:328542/105‑1 (MQ=255)

                                                                          gCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATggg                                                     <  2:236809/139‑1 (MQ=255)

                                                                           cccGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGt                                                    >  1:279880/1‑139 (MQ=255)

                                                                           cccGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTCGAGc                                                                                                          >  1:710534/1‑85 (MQ=255)

                                                                           cccGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACGGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGc                                                                                                          <  2:710534/85‑1 (MQ=255)

                                                                               ttGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCg                                                >  2:465354/1‑139 (MQ=255)

                                                                                     gTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTAc                                          <  2:713911/139‑1 (MQ=255)

                                                                                                ggCGATTATCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTg                               >  2:511770/1‑139 (MQ=255)

                                                                                                       aTCTGGCTCTACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTGCCGCTGATCCTGATtctct                        <  1:539250/139‑1 (MQ=255)

                                                                                                               ctACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGtt                >  2:683973/1‑139 (MQ=255)

                                                                                                                tACTGGACTGGCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTa               <  1:127262/139‑1 (MQ=255)

                                                                                                                          gCGATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGttt     >  2:100931/1‑139 (MQ=255)

                                                                                                                            gATACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGa   <  2:24211/139‑1 (MQ=255)

                                                                                                                             aTACCGCCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGAt  <  1:656907/139‑1 (MQ=255)

CCTCGCCGTATCCGGCGTACCTTATGCAACGTTGCTAACGGTGTTAATGATCCTCTCCTGCCTTGTCCAGCTTGGCCCGTTGCCGGTACTGATTCCGGCGATTATCTGGCTCTACTGGACTGGCGATACCACCTGGGGAACGGTATTGTTAGTGTGGAGCGGTGTGGTTGGCACGCTGGATAACGTCATCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGAT  >  NC_000913/1769769‑1770032

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A