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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,757,615	T→C	A65A (GCT→GCC)	lpp →	murein lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,757,615	0	T	C	100.0%	163.8 / NA	46	A65A (GCT→GCC)	lpp	murein lipoprotein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/30); total (16/30)

TTGCTCCAGCAACGCTAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCT  >  NC_000913/1757480‑1757748

ttGCTCCAGCAACGCTAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAAc                                                                                                                                    >  2:686321/1‑139 (MQ=255)

  gCTCCAGCAACGCTAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCa                                                                                                                                  >  1:292849/1‑139 (MQ=255)

    tCCAGCAACGCCAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGc                                                                                                                                <  1:686321/139‑1 (MQ=255)

       aGCAACGCTAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTc                                                                                                                             <  2:140687/139‑1 (MQ=255)

        gCAACGCTAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCt                                                                                                                            >  1:1022698/1‑139 (MQ=255)

               tAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGacaac                                                                                                                     <  2:715574/139‑1 (MQ=255)

                 aaaTCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACAt                                                                                                                   <  2:44179/139‑1 (MQ=255)

                   aTCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATgg                                                                                                                 <  2:944094/139‑1 (MQ=255)

                    tCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGc                                                                                                                <  1:463558/139‑1 (MQ=255)

                               tcttctGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATAcc                                                                                                     >  2:1047906/1‑139 (MQ=255)

                                cttctGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCg                                                                                                    <  1:501735/139‑1 (MQ=255)

                                 ttctGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGc                                                                                                   <  1:1030678/139‑1 (MQ=255)

                                  tctGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCa                                                                                                  <  1:908897/139‑1 (MQ=255)

                                   ctGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCaa                                                                                                 <  1:21068/139‑1 (MQ=255)

                                   ctGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCaa                                                                                                 <  1:1047906/139‑1 (MQ=255)

                                      aCGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTa                                                                                              >  1:530951/1‑139 (MQ=255)

                                       cGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTaa                                                                                             <  2:1022698/139‑1 (MQ=255)

                                          tCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAg                                                                                          <  2:655955/139‑1 (MQ=255)

                                            aGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTa                                                                                              >  2:743484/1‑133 (MQ=255)

                                            aGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTa                                                                                              <  1:743484/133‑1 (MQ=255)

                                             gACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTAc                                                                                       >  1:1000617/1‑139 (MQ=255)

                                                  tGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGacaa                                                                                                                      >  2:594838/1‑103 (MQ=255)

                                                  tGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGacaa                                                                                                                      <  1:594838/103‑1 (MQ=255)

                                                  tGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCtgtg                                                                                  <  2:530951/139‑1 (MQ=255)

                                                   gAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGac                                                                                                                        >  2:1038258/1‑100 (MQ=255)

                                                   gAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGac                                                                                                                        <  1:1038258/100‑1 (MQ=255)

                                                        cTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACAt                                                                                                                   >  2:26251/1‑100 (MQ=255)

                                                        cTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACAt                                                                                                                   <  1:26251/100‑1 (MQ=255)

                                                         tAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTgtgaagtgaa                                                                           <  1:494573/139‑1 (MQ=255)

                                                           aaGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGaaaa                                                                         <  1:505741/139‑1 (MQ=255)

                                                            aGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTg                                                                                                                           >  2:572082/1‑88 (MQ=255)

                                                            aGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTg                                                                                                                           <  1:572082/88‑1 (MQ=255)

                                                                gACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGgc                                                                    <  2:293666/139‑1 (MQ=255)

                                                                 aCCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATAcc                                                                                                     <  2:100852/105‑1 (MQ=255)

                                                                 aCCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATAcc                                                                                                     >  1:100852/1‑105 (MQ=255)

                                                                 aCCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGgcg                                                                   <  2:292849/139‑1 (MQ=255)

                                                                              cgacgTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGTTGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAAt                                                                                            >  2:989624/1‑101 (MQ=255)

                                                                              cgacgTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAAt                                                                                            <  1:989624/101‑1 (MQ=255)

                                                                                           aTGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATTGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCt                                         <  1:647982/139‑1 (MQ=255)

                                                                                                 tCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGtt                                   <  1:417985/139‑1 (MQ=255)

                                                                                                 tCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGAAAAAATGGCTACTAAATACCGCTAGTCATAGTATCTGTGAAGTGAAAAATGGCGCCTATTGCGCGCCATTTTTTTTGTCTGCCGtt                                   >  2:564432/1‑139 (MQ=255)

                                                                                                   cGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTa                                 <  2:894668/139‑1 (MQ=255)

                                                                                                               tgctAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGt                     <  2:493060/139‑1 (MQ=255)

                                                                                                                 ctAAAGATGACGCAGCTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCa                   >  1:188274/1‑139 (MQ=255)

                                                                                                                                cTCGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTcc    >  1:43817/1‑139 (MQ=255)

                                                                                                                                  cGTGCCAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCt  <  2:1000617/139‑1 (MQ=255)

TTGCTCCAGCAACGCTAAAATCGATCAGCTGTCTTCTGACGTTCAGACTCTGAACGCTAAAGTTGACCAGCTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCT  >  NC_000913/1757480‑1757748

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