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	2,379,360	T→C	L428L (TTA→TTG)	menF ←	isochorismate synthase MenF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,379,360	0	T	C	100.0%	123.5 / NA	38	L428L (TTA→TTG)	menF	isochorismate synthase MenF
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (25/13); total (25/13)

CCGCCCAGCGTCGGTTAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACG  >  NC_000913/2379226‑2379495

ccgccCAGCGTCGGTTAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGTGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGcaataa                                                                                                                                    >  1:397341/1‑140 (MQ=255)

ccgccCAGCGTCGGTTAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAATATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGcaataa                                                                                                                                    >  2:554267/1‑140 (MQ=255)

                   tGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACCCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCt                                                                                                                 <  2:362223/140‑1 (MQ=255)

                       cTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACg                                                                                                                              >  1:345019/1‑123 (MQ=255)

                       cTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACg                                                                                                                              <  2:345019/123‑1 (MQ=255)

                                aTGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGAttt                                                                                                    >  2:680315/1‑140 (MQ=255)

                                             gTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTg                                                                                       >  1:594651/1‑140 (MQ=255)

                                                     atTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGt                                                                               <  2:12746/140‑1 (MQ=255)

                                                        gCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTc                                                                                    >  1:286824/1‑132 (MQ=255)

                                                        gCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTc                                                                                    <  2:286824/132‑1 (MQ=255)

                                                        gCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCgg                                                                            >  2:93481/1‑140 (MQ=255)

                                                         cGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGa                                                                           >  2:511684/1‑140 (MQ=255)

                                                           gCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCTTTTGCAATAAAGTACGCAGCCCTGCCGTTTTGTTCTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAAc                                                                         <  2:179479/140‑1 (MQ=255)

                                                                          cTACAAAAATAGATTATTGATATGAATCGGTAATGATGTGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCcg                                                          <  2:397341/140‑1 (MQ=255)

                                                                          cTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGcc                                                            <  2:282661/138‑1 (MQ=255)

                                                                          cTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGcc                                                            >  1:282661/1‑138 (MQ=255)

                                                                          cTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCcg                                                          >  1:843742/1‑140 (MQ=255)

                                                                           tACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCcgc                                                         >  1:17731/1‑140 (MQ=255)

                                                                           tACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCcgc                                                         >  1:686202/1‑140 (MQ=255)

                                                                           tACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCcgc                                                         >  1:452174/1‑140 (MQ=255)

                                                                             cAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCgcgc                                                       <  1:93481/140‑1 (MQ=255)

                                                                             cAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCgcgc                                                       <  2:686202/140‑1 (MQ=255)

                                                                             cAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCgcgc                                                       <  2:594651/140‑1 (MQ=255)

                                                                                               atGAATCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGa                                     >  1:838489/1‑140 (MQ=255)

                                                                                                  aaTCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACAt                                  <  1:680315/140‑1 (MQ=255)

                                                                                                    tCGGTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTg                                >  2:629210/1‑140 (MQ=255)

                                                                                                       gTAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCg                             >  1:779514/1‑140 (MQ=255)

                                                                                                        tAATGATGCGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGc                            >  1:207677/1‑140 (MQ=255)

                                                                                                                cGACTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAAttttt                    >  1:153090/1‑140 (MQ=255)

                                                                                                                   cTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCt                 <  2:843742/140‑1 (MQ=255)

                                                                                                                   cTCATTACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCt                 <  1:97932/140‑1 (MQ=255)

                                                                                                                       ttACTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAgc             >  2:458063/1‑140 (MQ=255)

                                                                                                                        tccTATTCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAgcg            <  1:377550/138‑1 (MQ=255)

                                                                                                                             ttCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAggg       >  1:785537/1‑140 (MQ=255)

                                                                                                                             ttCCATTTGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAggg       >  2:745474/1‑140 (MQ=255)

                                                                                                                                  tttGCAATAAAGTACGGATCCCTGGCGCGTTGTTGTCGATTTCCTGCCACTCTTGGTCGGGGTCAGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAAcc  >  2:821785/1‑139 (MQ=255)

                                                                                                                                  tttGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGTATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACg  >  2:88287/1‑140 (MQ=255)

                                                                                                                                  tttGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACg  >  1:295975/1‑140 (MQ=255)

                                                                                                                                  tttGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACg  >  2:314265/1‑140 (MQ=255)

                                                                                                                                  tttGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACg  >  1:700476/1‑140 (MQ=255)

                                                                                                                                  tttGCAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACg  >  1:726198/1‑140 (MQ=255)

CCGCCCAGCGTCGGTTAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGCAGCCCTGCCGCTTTGTTGTCGATTTCCTGCCACTCTTGCTCGGGGTCGGAACCACGGACAATGCCCGCGCCAGCATATAATCGCACGACATTGCCGCTAATTTTTGCTGAGCGCAGGGAAACG  >  NC_000913/2379226‑2379495

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `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