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
A9 F1 I1 R1	759	71.0	3673240	91.5%	3361014	104.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,494,694	T→C	intergenic (‑292/‑4)	yfdX ← / → ypdI	uncharacterized protein/putative lipoprotein involved in colanic acid biosynthesis

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,494,694	0	T	C	100.0%	175.3 / NA	51	intergenic (‑292/‑4)	yfdX/ypdI	uncharacterized protein/putative lipoprotein involved in colanic acid biosynthesis
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (28/23); total (28/23)

CCACAAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTTTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAAGAGACTGAAAAAACATCAGCG  >  NC_000913/2494590‑2494826

ccACAAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTAt                                                                                                    >  1:564350/1‑139 (MQ=255)

   caAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTa                                                                                                                                  >  1:796894/1‑106 (MQ=255)

   caAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTa                                                                                                                                  <  2:796894/106‑1 (MQ=255)

   caAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAg                                                                                                         >  2:342260/1‑131 (MQ=255)

   caAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAg                                                                                                         <  1:342260/131‑1 (MQ=255)

   caAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTAtttt                                                                                                 >  2:1053847/1‑139 (MQ=255)

        agaTGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTg                                                                                            <  2:559108/139‑1 (MQ=255)

          aTGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAAAACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          <  1:1053847/139‑1 (MQ=255)

                                 aaTACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          <  1:1573364/116‑1 (MQ=255)

                                 aaTACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          >  2:1573364/1‑116 (MQ=255)

                                      tGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTa                                                                                               >  2:147562/1‑106 (MQ=255)

                                      tGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTa                                                                                               <  1:147562/106‑1 (MQ=255)

                                       gATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          >  1:842792/1‑110 (MQ=255)

                                       gATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          <  2:842792/110‑1 (MQ=255)

                                       gATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCAt                                                             >  1:156505/1‑139 (MQ=255)

                                       gATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCAt                                                             >  1:388479/1‑139 (MQ=255)

                                         ttaattaaATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCAttt                                                           >  2:1286105/1‑139 (MQ=255)

                                                  tGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          >  1:906819/1‑99 (MQ=255)

                                                  tGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          <  2:906819/99‑1 (MQ=255)

                                                  tGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCg                                                  >  1:549080/1‑139 (MQ=255)

                                                  tGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCg                                                  <  2:388479/139‑1 (MQ=255)

                                                    tAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCggg                                                <  2:549080/139‑1 (MQ=255)

                                                       aTACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGggtgg                                             <  2:156505/139‑1 (MQ=255)

                                                         aCAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGgtggtg                                           <  2:564350/139‑1 (MQ=255)

                                                            gCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGaa                                        >  1:1616163/1‑139 (MQ=255)

                                                             ccATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAg                                       >  2:607483/1‑139 (MQ=255)

                                                             ccATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAg                                       >  2:972416/1‑139 (MQ=255)

                                                                tAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTga                                    >  2:619996/1‑139 (MQ=255)

                                                                 aaCATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTgag                                   <  1:972416/139‑1 (MQ=255)

                                                                   cATCGTATGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAACGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGagag                                 <  1:619996/139‑1 (MQ=255)

                                                                   cATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGagag                                 <  2:1616163/139‑1 (MQ=255)

                                                                     tCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCaa                                                                        >  1:1031778/1‑98 (MQ=255)

                                                                     tCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCaa                                                                        <  2:1031778/98‑1 (MQ=255)

                                                                     tCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGagag                                 >  2:1740489/1‑137 (MQ=255)

                                                                     tCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGagag                                 <  1:1740489/137‑1 (MQ=255)

                                                                     tCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTA‑GGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAgaggag                              >  1:1094071/1‑139 (MQ=255)

                                                                       gTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          >  2:1783376/1‑78 (MQ=255)

                                                                       gTAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGt                                                                                          <  1:1783376/78‑1 (MQ=255)

                                                                        tAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCggg                                                <  1:552526/119‑1 (MQ=255)

                                                                        tAGGTTCTCAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCggg                                                >  2:552526/1‑119 (MQ=255)

                                                                             tctcAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGt                                      >  1:900477/1‑124 (MQ=255)

                                                                             tctcAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTGTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGt                                      <  2:900477/124‑1 (MQ=255)

                                                                              ctcAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGtct                                                                                        >  2:1494148/1‑73 (MQ=255)

                                                                              ctcAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGtct                                                                                        <  1:1494148/73‑1 (MQ=255)

                                                                                cAGTGAACCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAagag                    >  1:935718/1‑139 (MQ=255)

                                                                                     aaCCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGgtggtg                                           <  1:276849/111‑1 (MQ=255)

                                                                                     aaCCATTTTCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGgtggtg                                           >  2:276849/1‑111 (MQ=255)

                                                                                             tCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAAGAGACTGAAAAAACAt       >  1:1656076/1‑139 (MQ=255)

                                                                                             tCAGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAAGAGACTGAAAAAACAt       >  1:783324/1‑139 (MQ=255)

                                                                                               aGGATAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGTATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAAGAGACTGAAAAAACATCa     >  1:1142657/1‑139 (MQ=255)

                                                                                                  aTAACTCTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAAGAGACTGAAAAAACATCAGCg  <  1:1286105/139‑1 (MQ=255)

CCACAAAGAGATGTCATTTATTATATCGATGTAAATACTGATTAATTAAATGTAAATACAGCCATAACATCGTAGGTTCTCAGTGAACCATTTTCAGGATAACTTTCTATGAAAGTAAACTTAATACTTTTCAGCTTATTTTTATTGGTCTCTATTATGGCATGCAATGTTTTTGCATTTTCCATTTCGGGTGGTGGAAGTGAGAGGAGCTATAAAGAGACTGAAAAAACATCAGCG  >  NC_000913/2494590‑2494826

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A