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
A15 F18 I0 R1	80	28.1	641476	93.5%	599780	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%	86.6 / NA	30	intergenic (‑96/‑20)	nanA/nagC	N‑acetylneuraminate lyase/possible transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (16/14); total (16/14)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAAT  >  CP000730/367521‑367774

cATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTAtaa                                                                                                                    >  2:313479/1‑140 (MQ=255)

           tttAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAAt                                                                                                         <  2:140048/140‑1 (MQ=255)

              aaaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGtt                                                                                                      <  1:184013/140‑1 (MQ=255)

               aaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTTTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATGTTTATGTATAATTAAAGGAAATGttt                                                                                                     >  1:253831/1‑140 (MQ=255)

                   tttGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCa                                                                                                 >  2:66166/1‑140 (MQ=255)

                       ccacgtctGAAGTGTCTCAATATATCATTTGATAATATAGTTTACAGATATAATTGTAAACGCTATCATAAAATGTAACAACATCTGTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGATTTTCAAAAt                                                                                             <  2:298220/133‑1 (MQ=255)

                           ttgggAAGTCACTCCAAAGATCTTTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTGTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAt                                                                                         <  1:291785/136‑1 (MQ=255)

                             aTGAACTCGCGCCAAAAATCATTTGATAACATTCGCCACAGCTATAATGGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGCTTTTCAAAATCAATAg                                                                                       <  2:145184/140‑1 (MQ=255)

                                aaGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGaaa                                                                                    >  1:183533/1‑140 (MQ=255)

                                   tCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAACTgg                                                                                 >  2:110971/1‑140 (MQ=255)

                                        ccAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagtga                                                                            >  2:243704/1‑140 (MQ=255)

                                          aaaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagtgagt                                                                          <  1:313479/140‑1 (MQ=255)

                                             aaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAg                                                                       <  2:20281/140‑1 (MQ=255)

                                             aaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAg                                                                       >  2:29028/1‑140 (MQ=255)

                                                cATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAATATTTTATTCATATTGATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGATCAAGTAAGatg                                                                    >  2:31083/1‑140 (MQ=255)

                                                               tttACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATATTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGGGAGTAAGGGGTAGTACATCTCAATc                                                     >  1:117475/1‑140 (MQ=255)

                                                                 tACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTACGGTGTATTACATCGCAATCGa                                                   >  2:293922/1‑140 (MQ=255)

                                                                 tACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGa                                                   <  2:32687/140‑1 (MQ=255)

                                                                       tataATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATAttag                                             >  1:293471/1‑138 (MQ=255)

                                                                       tataATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTgg                                             >  2:91561/1‑140 (MQ=255)

                                                                             tGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGGGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCAc                                       >  1:248918/1‑140 (MQ=255)

                                                                                   cGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAAt                                 <  2:9951/140‑1 (MQ=255)

                                                                                    gCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAAtt                                >  2:282874/1‑140 (MQ=255)

                                                                                     atATCAAAAAATGTAACAATATTTTTTTTAAAATTTTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTa                               <  2:117475/139‑1 (MQ=255)

                                                                                       aTCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTaaa                             >  1:189646/1‑140 (MQ=255)

                                                                                               aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCCCTCAAATTAAATCGGCAGt                     <  2:245022/140‑1 (MQ=255)

                                                                                                        tatCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATaa            <  1:299124/140‑1 (MQ=255)

                                                                                                         atCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAg           <  2:2229/140‑1 (MQ=255)

                                                                                                                 gAAAATGGTATTCATTTTTATGTTTAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGaa   <  1:29033/140‑1 (MQ=255)

                                                                                                                  aaaaTTGTATTCATCTTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGaca  >  2:70293/1‑138 (MQ=255)

CATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAAT  >  CP000730/367521‑367774

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