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
A17 F109 I0 R1	32	27.2	584098	96.5%	563654	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	367,644	G→T	100%	intergenic (‑96/‑20)	nanA ← / → nagC	N‑acetylneuraminate lyase/possible transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	367,644	0	G	T	100.0%	108.0 / NA	34	intergenic (‑96/‑20)	nanA/nagC	N‑acetylneuraminate lyase/possible transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (22/12); total (22/12)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGTT  >  CP000730/367515‑367779

aCGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTTTattcatattcat                                                                                                                               >  1:43389/1‑140 (MQ=255)

          taAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATCGTTTTCATATGTATGTAtaattaa                                                                                                                     >  2:244697/1‑140 (MQ=255)

                ttttAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGaaaa                                                                                                               >  1:47847/1‑140 (MQ=255)

                 tttAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAAt                                                                                                              <  2:20798/140‑1 (MQ=255)

                   tAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGt                                                                                                            <  2:277958/140‑1 (MQ=255)

                    aaaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTTTATTTATTAAAAATGtt                                                                                                           >  1:261719/1‑140 (MQ=255)

                    aaaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGtt                                                                                                           >  1:180094/1‑140 (MQ=255)

                     aaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAGAATTGTATTCATATTTATGTATAATTAATGAAAATGttt                                                                                                          >  2:176651/1‑140 (MQ=255)

                       tttttGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGttttt                                                                                                        <  2:181690/138‑1 (MQ=255)

                        cTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTc                                                                                                       <  1:217391/140‑1 (MQ=255)

                               cATTATGAAGTCCCTTCAAAAATCATTTGATAATATCGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACCATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCa                                                                                                <  1:271329/140‑1 (MQ=255)

                               cATTATAAAGTACCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCa                                                                                                <  1:71251/140‑1 (MQ=255)

                                  tATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAAGTGTATTCATATTTATGTATAATTAATAAAATTGTTTTTCAAAATCAATa                                                                                             >  2:260224/1‑140 (MQ=255)

                                  tATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTATAAACGCTATCATAAAATGTAACAATATCTTTTTGAATATTGTATTATTATTTATCTATAATTAATAATAATTTTTTTCAAAAtatata                                                                                             >  2:185494/1‑135 (MQ=255)

                                     gAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAACCGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATAAAAATGTTTTTCAAAATCAATAGaa                                                                                          >  1:135994/1‑140 (MQ=255)

                                       aGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAAt                                                                                        <  1:220920/140‑1 (MQ=255)

                                          cccTCCAAAAATCATTTGATAATATACGACAGGTGTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGga                                                                                     >  1:288447/1‑140 (MQ=255)

                                               cAAAAATCATTTGATAAGATAGTTTACAGCTATAGTTGTAAACGCTATCATACAATGTAACAATATCTTTTTTAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATACATAAAAATAgagtgag                                                                                >  1:88733/1‑140 (MQ=255)

                                                aaaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagtgagt                                                                               <  1:228901/140‑1 (MQ=255)

                                                 aaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTa                                                                              >  1:289133/1‑140 (MQ=255)

                                                  aaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTaa                                                                             <  1:232409/140‑1 (MQ=255)

                                                       aTTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGAGAGTAAGgtgt                                                                        >  1:102711/1‑140 (MQ=255)

                                                                 ataGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGc                                                              >  1:278809/1‑140 (MQ=255)

                                                                       tACAGCTAGAATTGTAAACGCGATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGa                                                        >  2:170183/1‑140 (MQ=255)

                                                                                  ttGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCa                                             >  1:204534/1‑140 (MQ=255)

                                                                                   tGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCAc                                            <  1:160573/140‑1 (MQ=255)

                                                                                      aaaCGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCa                                         >  2:275005/1‑140 (MQ=255)

                                                                                                     aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGt                          >  1:237358/1‑140 (MQ=255)

                                                                                                       gTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTTTAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGATGGCACTCAAATTAAATCGGCAGtga                        >  2:24176/1‑138 (MQ=255)

                                                                                                          aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTTAGCACGGTGTATTACATAGAAAACGATATTGGAGGCACTCAAATTAAAACGGCAGTTATTg                     >  2:247379/1‑140 (MQ=255)

                                                                                                          aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTg                     >  2:245597/1‑140 (MQ=255)

                                                                                                          aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTg                     >  1:266152/1‑140 (MQ=255)

                                                                                                             atatCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATa                  <  1:278784/140‑1 (MQ=255)

                                                                                                                           aTTTTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATg    <  2:266152/140‑1 (MQ=255)

                                                                                                                             tGTATTCATATTTATGTATAATTAATGAAACTGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATGGGAATGGAAAGTGGAGGCACTCAAATTAAATCGGCAGTTATGAAAAAGCAATGGatagtgat  >  2:116439/1‑133 (MQ=255)

ACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGTT  >  CP000730/367515‑367779

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A