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
A11 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,472,605	G→A	R93W (CGG→TGG)	yfdN ←	CPS‑53 (KpLE1) prophage, uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,472,605	0	G	A	100.0%	147.4 / NA	48	R93W (CGG→TGG)	yfdN	CPS‑53 (KpLE1) prophage, uncharacterized protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/27); total (21/27)

GCGCCAGAAAATTGTTTCGTTCTGGCTGGGAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCGCGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTATCTCCTTCACAACGGTGAGCCA  >  NC_000913/2472473‑2472736

gcgcCAGAAAATTGTTTCGTTCTGGCTGGGAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTc                                                                                                                               >  2:1180853/1‑139 (MQ=255)

  gcCAGAAAATTGTTTCGTTCTGGCTGGGAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGt                                                                                                                             >  1:186291/1‑139 (MQ=255)

         aaTTGTTTCGTTCTGGCTGGGAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGcc                                                                                                                      <  2:1279979/139‑1 (MQ=255)

             gTTTCGTTCTGGCTGGGAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACa                                                                                                                  <  2:1623974/139‑1 (MQ=255)

                           gggAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGcac                                                                                                    <  1:687134/139‑1 (MQ=255)

                                  gCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTg                                                                                             >  1:1144428/1‑139 (MQ=255)

                                  gCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTg                                                                                             >  2:291859/1‑139 (MQ=255)

                                  gCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTg                                                                                             >  1:1633543/1‑139 (MQ=255)

                                                   ccATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTtg                                                                            <  2:1356649/139‑1 (MQ=255)

                                                            ccGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCCGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTtg                                                                            <  2:571238/130‑1 (MQ=255)

                                                            ccGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCCGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTtg                                                                            >  1:571238/1‑130 (MQ=255)

                                                             cGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTtg                                                                            >  2:38191/1‑129 (MQ=255)

                                                             cGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTtg                                                                            <  1:38191/129‑1 (MQ=255)

                                                                tGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACa                                                                                                                  >  2:1250994/1‑88 (MQ=255)

                                                                tGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACa                                                                                                                  <  1:1250994/88‑1 (MQ=255)

                                                                    gcaCGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTgcg                                                           <  1:21621/139‑1 (MQ=255)

                                                                     caCGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTgcgc                                                          <  1:616215/139‑1 (MQ=255)

                                                                       cgacgGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGctc                                                        <  2:20794/139‑1 (MQ=255)

                                                                          cgGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGctctct                                                     >  1:1568431/1‑139 (MQ=255)

                                                                          cgGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGctctct                                                     <  2:1633543/139‑1 (MQ=255)

                                                                              ataAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCtcagt                                                 <  1:291859/139‑1 (MQ=255)

                                                                                    cccTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGgcg                                           <  1:1180853/139‑1 (MQ=255)

                                                                                    cccTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGgcg                                           <  2:1133301/139‑1 (MQ=255)

                                                                                      cTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGcgcg                                         <  1:656827/139‑1 (MQ=255)

                                                                                       tGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGcc                                                                                                                      >  2:1124760/1‑61 (MQ=255)

                                                                                       tGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCgg                                        >  2:1386577/1‑139 (MQ=255)

                                                                                       tGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCgg                                        >  2:59897/1‑139 (MQ=255)

                                                                                       tGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCgg                                        >  1:962818/1‑139 (MQ=255)

                                                                                       tGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATAACCCACGGGTCGTTAGTGcc                                                                                                                      <  1:1124760/61‑1 (MQ=255)

                                                                                          aCTCCAGTTCTTCCGCCTGGCGGGTCAGGCATAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGaa                                     <  2:377227/139‑1 (MQ=255)

                                                                                              cAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGt                                 <  2:1568431/139‑1 (MQ=255)

                                                                                               aGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTc                                <  1:59897/139‑1 (MQ=255)

                                                                                                gTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCt                               <  1:402790/139‑1 (MQ=255)

                                                                                                    ttcCGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCtgtgt                           >  1:1138400/1‑139 (MQ=255)

                                                                                                      ccGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTgcg                                                           >  2:1306678/1‑105 (MQ=255)

                                                                                                      ccGCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTgcg                                                           <  1:1306678/105‑1 (MQ=255)

                                                                                                        gCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGgcg                                           >  2:863156/1‑119 (MQ=255)

                                                                                                        gCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGgcg                                           <  1:863156/119‑1 (MQ=255)

                                                                                                        gCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTAt                       <  1:585938/139‑1 (MQ=255)

                                                                                                        gCCTGGCGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTAt                       >  1:1032909/1‑139 (MQ=255)

                                                                                                              cGGGTCAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTATCTCCtt                 >  2:1143208/1‑139 (MQ=255)

                                                                                                                   cAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGa                                      >  2:1156099/1‑113 (MQ=255)

                                                                                                                   cAGGCACAAAATCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGa                                      <  1:1156099/113‑1 (MQ=255)

                                                                                                                             aTCACCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTATCTCCTTCACAACGGTGAGCca  <  1:1143208/139‑1 (MQ=255)

                                                                                                                                aCCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCGCGaa                                                                                   <  2:794194/55‑1 (MQ=255)

                                                                                                                                aCCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTATCTCCTTcac              >  1:842789/1‑124 (MQ=255)

                                                                                                                                aCCCACGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTATCTCCTTcac              <  2:842789/124‑1 (MQ=255)

                                                                                                                                aCCCACGGGTCGTTAGTACCGACATAGAAATTGCGCACAGGTCTGGTTTCGCGaa                                                                                   >  1:794194/1‑55 (MQ=255)

GCGCCAGAAAATTGTTTCGTTCTGGCTGGGAGTGGCTTTCACGGAATGCCGCCATCCACACCGTTGCAGCACGACGGTATAAGCCCCTGGACTCCAGTTCTTCCGCCTGGCGGGTCAGGCACAAAATCACCCGCGGGTCGTTAGTGCCGACATAGAAATTGCGCACAGGTCTGGTTTCACGAACTGGTTGTGGTTCCGGATCCTGCGCTCTCTCAGTCAGGCGCGGGAAATGTCTGTGTGTATCTCCTTCACAACGGTGAGCCA  >  NC_000913/2472473‑2472736

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A