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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,089,570	T→C	E96E (GAA→GAG)	pgaB ←	poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine (PGA) N‑deacetylase outer membrane export lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,089,570	0	T	C	100.0%	138.7 / NA	38	E96E (GAA→GAG)	pgaB	poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine (PGA) N‑deacetylase outer membrane export lipoprotein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/17); total (21/17)

GCCGACGGGGGCCCATACAGCAGGCCACTGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCTTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTCGGCAGCTTCGTCTTCAACGTTA  >  NC_000913/1089435‑1089693

gCCGACGGGGGCCCATACAGCAGGCCACTGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCa                                                                                                                          <  1:295042/139‑1 (MQ=255)

           cccATACAGCAGGCCACTGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGc                                                                                                               >  1:340404/1‑139 (MQ=255)

             cATACAGCAGGCCACTGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAATCGTCATCAAAAGTCAGCAATACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCaa                                                                                                             <  2:969352/139‑1 (MQ=255)

                            tGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGAt                                                                                              >  1:117483/1‑139 (MQ=255)

                            tGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGAt                                                                                              >  1:719365/1‑139 (MQ=255)

                              gAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGAc                                                                                                      <  2:57376/129‑1 (MQ=255)

                              gAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGAc                                                                                                      >  1:57376/1‑129 (MQ=255)

                               aaGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAAc                                                                                           <  1:792967/139‑1 (MQ=255)

                                   ccTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGtt                                                                                       >  1:803473/1‑139 (MQ=255)

                                        agaaTTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTcgc                                                                                  >  2:1127939/1‑139 (MQ=255)

                                           aTTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCa                                                                               <  2:117483/139‑1 (MQ=255)

                                            ttGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAg                                                                                                                >  2:921499/1‑105 (MQ=255)

                                            ttGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAg                                                                                                                <  1:921499/105‑1 (MQ=255)

                                                    aCGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGAcc                                                                                                     <  1:498702/108‑1 (MQ=255)

                                                    aCGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGAcc                                                                                                     >  2:498702/1‑108 (MQ=255)

                                                         ggTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGt                                                                 >  2:249684/1‑139 (MQ=255)

                                                              aaaaaCTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            <  1:862785/139‑1 (MQ=255)

                                                              aaaaaCTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            <  1:1127939/139‑1 (MQ=255)

                                                                    tctGGTAGCCGTCAACAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACAAATTTGAGCAATACTGACCGGTTGATCACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGc                                                      >  1:798156/1‑139 (MQ=255)

                                                                          aGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGc                                                                             <  1:806873/110‑1 (MQ=255)

                                                                          aGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGc                                                                             >  2:806873/1‑110 (MQ=255)

                                                                           gCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTc                                               >  2:1017727/1‑139 (MQ=255)

                                                                              gTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGc                                            >  2:1292156/1‑139 (MQ=255)

                                                                                                  cAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            <  2:29483/103‑1 (MQ=255)

                                                                                                  cAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            >  1:29483/1‑103 (MQ=255)

                                                                                                  cAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTc                        >  1:872442/1‑139 (MQ=255)

                                                                                                   aGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTCg                       >  1:141488/1‑139 (MQ=255)

                                                                                                       ttttCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            <  1:608683/98‑1 (MQ=255)

                                                                                                       ttttCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            >  2:608683/1‑98 (MQ=255)

                                                                                                          tCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            >  2:1296101/1‑95 (MQ=255)

                                                                                                          tCCGGTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            <  1:1296101/95‑1 (MQ=255)

                                                                                                              gTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCAc                                          >  1:1304358/1‑109 (MQ=255)

                                                                                                              gTAGCGGTTTTCCTCCTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCAc                                          <  2:1304358/109‑1 (MQ=255)

                                                                                                                        tcctccTCGATGTGCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTCGGCAGCTTCGTCTTCAACGTTa  <  2:872442/139‑1 (MQ=255)

                                                                                                                                  tgtgCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            <  2:1278804/71‑1 (MQ=255)

                                                                                                                                  tgtgCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACg                                                            >  1:1278804/1‑71 (MQ=255)

                                                                                                                                   gtgCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTCGGCAGCTTCGTCTTCAACGTTa  <  2:1181029/128‑1 (MQ=255)

                                                                                                                                   gtgCCTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTCGGCAGCTTCGTCTTCAACGTTa  >  1:1181029/1‑128 (MQ=255)

GCCGACGGGGGCCCATACAGCAGGCCACTGGAAGGCCTGAAGAATTGGGAAGACGCGGGTATAAAAACTCTGGTAGCCGTCATCAAAAGTCAGCACTACAGCTTTTTCCGGTAGCGGTTTTCCTCCTCGATGTGCTTCACGAATTTGAGCAATACTGACCGGTTGATAACCGTTCTCGCGCAGCCAGGCAAATTGTTCACGCAGTGCTGATGTCCGCACTGACATAAAACGCTGGTCGGCAGCTTCGTCTTCAACGTTA  >  NC_000913/1089435‑1089693

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A