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 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,115,233	T→C	T1294A (ACG→GCG)	yghJ ←	putative lipoprotein YghJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,115,233	0	T	C	100.0%	95.0 / NA	28	T1294A (ACG→GCG)	yghJ	putative lipoprotein YghJ
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/14); total (14/14)

CTTGCCGAGATAACGATCCTGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGTCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTAT  >  NC_000913/3115099‑3115358

cTTGCCGAGATAACGATCCTGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGccgtcg                                                                                                                          >  2:788533/1‑140 (MQ=255)

 ttcccGAGATAACGATCCTGCATGTACAGCCCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCgg                                                                                                                         <  2:543851/137‑1 (MQ=255)

   gCCGAGATAACGATCCTGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCa                                                                                                                       >  1:363788/1‑140 (MQ=255)

           aaCGATCCTGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCgtggtg                                                                                                               <  2:632483/140‑1 (MQ=255)

                 ccTGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTc                                                                                                         >  1:31703/1‑140 (MQ=255)

                   tGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCgg                                                                                                       >  1:208129/1‑140 (MQ=255)

                   tGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCgg                                                                                                       >  1:163113/1‑140 (MQ=255)

                                  aGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGtt                                                                                        <  2:852785/140‑1 (MQ=255)

                                  aGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGtt                                                                                        <  2:117292/140‑1 (MQ=255)

                                           ttAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCgg                                                                               >  1:522654/1‑140 (MQ=255)

                                                   ttCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCg                                                                       >  1:256838/1‑140 (MQ=255)

                                                   ttCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCg                                                                       >  1:822911/1‑140 (MQ=255)

                                                     cAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGaa                                                                     >  1:519077/1‑140 (MQ=255)

                                                     cAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGaa                                                                     <  2:208129/140‑1 (MQ=255)

                                                            aCCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCAt                                                              <  2:84933/140‑1 (MQ=255)

                                                               cGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCAc                                                           <  2:163113/140‑1 (MQ=255)

                                                                    cAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATg                                                      <  2:256838/140‑1 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGga                                                    <  1:814960/134‑1 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGga                                                    >  2:814960/1‑134 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGga                                                    <  1:416889/134‑1 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGga                                                    >  2:416889/1‑134 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTg                                              >  2:164463/1‑140 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTg                                              <  2:730974/140‑1 (MQ=255)

                                                                            ggCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTg                                              >  2:11398/1‑140 (MQ=255)

                                                                                               gACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGa                           <  2:363788/140‑1 (MQ=255)

                                                                                                                aTCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCaa          >  1:730191/1‑140 (MQ=255)

                                                                                                                aTCAGCCAGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCaa          <  1:788533/140‑1 (MQ=255)

                                                                                                                       aGTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTta   <  2:730191/140‑1 (MQ=255)

                                                                                                                        gTCGTTCAGCGGCGCCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTtat  >  1:816469/1‑140 (MQ=255)

CTTGCCGAGATAACGATCCTGCATGTACAGCGCCAGCACGTTGTTAGCGACTTCAGTTGCACCCGGTACAGTCAACGGCGTTTCTGCGGCGTTATGACCGACTTCATGCCAGATCAGCCAGTCGTTCAGCGGCGTCGTCGGCAGCGTGGTGCTGTTCGGCGAGAAGCTGCTGTTCATTACCGGATAACCCGAATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTAT  >  NC_000913/3115099‑3115358

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A