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 F28 I1 R1	139	53.6	1844736	98.1%	1809686	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,415,063	T→C	D775G (GAC→GGC)	recE ←	Rac prophage; exonuclease VIII, ds DNA exonuclease, 5' ‑‑> 3' specific

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,415,063	0	T	C	100.0%	144.7 / NA	42	D775G (GAC→GGC)	recE	Rac prophage; exonuclease VIII, ds DNA exonuclease, 5' ‑‑> 3' specific
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (24/18); total (24/18)

CATGAAAATTTCAACCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGTCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTCCCAGTAAAT  >  NC_000913/1414930‑1415193

catGAAAATTTCAACCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGtaat                                                                                                                              >  1:736814/1‑140 (MQ=255)

          tCAACCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGtttt                                                                                                                    >  1:837060/1‑140 (MQ=255)

           cAACCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTg                                                                                                                   <  2:354923/140‑1 (MQ=255)

             aCCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGaa                                                                                                                 <  1:495929/140‑1 (MQ=255)

             aCCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGaa                                                                                                                 <  2:727777/140‑1 (MQ=255)

                  aTAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGtt                                                                                                            >  1:741531/1‑140 (MQ=255)

                           gCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATccg                                                                                                   <  2:759126/140‑1 (MQ=255)

                           gCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATccg                                                                                                   >  2:866467/1‑140 (MQ=255)

                                  aTAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATccgccg                                                                                                <  2:691699/136‑1 (MQ=255)

                                  aTAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATccgccg                                                                                                >  1:691699/1‑136 (MQ=255)

                                   tAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGtt                                                                                           >  2:598771/1‑140 (MQ=255)

                                        gtgCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCAc                                                                                      <  2:438439/140‑1 (MQ=255)

                                           cTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTc                                                                                   >  1:6382/1‑140 (MQ=255)

                                            tGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTcc                                                                                  <  1:431109/140‑1 (MQ=255)

                                             ggCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATccgcc                                                                                                 <  2:17172/124‑1 (MQ=255)

                                             ggCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATccgcc                                                                                                 >  1:17172/1‑124 (MQ=255)

                                             ggCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCa                                                                                 <  1:94968/140‑1 (MQ=255)

                                              gCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCAt                                                                                >  1:530903/1‑140 (MQ=255)

                                                  ccAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATc                                                                            <  1:586009/140‑1 (MQ=255)

                                                    aGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCa                                                                          <  1:866467/140‑1 (MQ=255)

                                                                  tGGCTGCACTAAAAATGGTGCTTCATAACGGACACTTAAAAATCCATCATGAGCTTAATAGGGGTTCCTGTAATAAGCGGTTTTGAATGGTAGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGa                                                            <  2:736814/140‑1 (MQ=255)

                                                                                     gCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCa                                         >  2:538381/1‑140 (MQ=255)

                                                                                      cTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCAc                                        >  2:635684/1‑140 (MQ=255)

                                                                                         cATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGa                                     >  2:671514/1‑140 (MQ=255)

                                                                                               cGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACaaa                               <  1:598771/140‑1 (MQ=255)

                                                                                                   aCTGTAGAATGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCTGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTc                           >  1:392980/1‑140 (MQ=255)

                                                                                                          aaTGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTc                    <  2:741531/140‑1 (MQ=255)

                                                                                                            tGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTcc                          >  1:559734/1‑132 (MQ=255)

                                                                                                            tGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTcc                          <  2:559734/132‑1 (MQ=255)

                                                                                                            tGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAg                  >  2:724361/1‑140 (MQ=255)

                                                                                                            tGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAg                  >  1:492306/1‑140 (MQ=255)

                                                                                                            tGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAg                  >  2:118333/1‑140 (MQ=255)

                                                                                                            tGCATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGGAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAg                  >  2:817692/1‑140 (MQ=255)

                                                                                                              cATCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGa                <  2:492306/140‑1 (MQ=255)

                                                                                                               aTCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCTGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGAt               <  2:392980/140‑1 (MQ=255)

                                                                                                               aTCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGAt               >  2:322880/1‑140 (MQ=255)

                                                                                                               aTCCTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGAt               <  1:118333/140‑1 (MQ=255)

                                                                                                                 ccTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAAtt                            <  2:408257/125‑1 (MQ=255)

                                                                                                                 ccTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAAtt                            >  1:408257/1‑125 (MQ=255)

                                                                                                                 ccTGAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCt             <  2:183788/140‑1 (MQ=255)

                                                                                                                    gAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCt             <  2:18329/137‑1 (MQ=255)

                                                                                                                    gAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCt             >  1:18329/1‑137 (MQ=255)

                                                                                                                    gAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTcc          >  2:613754/1‑140 (MQ=255)

                                                                                                                    gAACGTGATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTcc          <  1:322880/140‑1 (MQ=255)

                                                                                                                          gATAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTCCCAGTaa    >  1:186206/1‑140 (MQ=255)

                                                                                                                           aTAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAgg                 <  2:215010/126‑1 (MQ=255)

                                                                                                                           aTAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAgg                 >  1:215010/1‑126 (MQ=255)

                                                                                                                           aTAGCGGTAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTCCCAGTaaa   >  2:874091/1‑140 (MQ=255)

                                                                                                                                  tAGCCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTCCCAGTAAAt  <  2:816315/134‑1 (MQ=255)

CATGAAAATTTCAACCGGATAACGTCCGCATTCAATAGTTGTGCTGGCAACCAGAAAAACGAAAGTTGGCTGCACTCCAAACTGTGCTTCATAACCGTCACTGTAGAATGCATCCTGAACGTGATAGCGGTAGTCGTAATAAGCGGTTTTGAATCGTTGAATATCCGCCGTAGTTTTCACGTCCATGATCCAGTGAAATTCAGGGATAATTTTGTCCGGACGGCACCGACACAAAATTCCTGTTTCAGGATCTTCCCAGTAAAT  >  NC_000913/1414930‑1415193

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A